Source Name	Provider	Material Type	Term Source REF	Characteristics[Organism]	Term Source REF	Characteristics[Sex]	Term Source REF	Characteristics[DiseaseState]	Term Source REF	Comment[OCG Cohort]	Sample Name	Material Type	Term Source REF	Characteristics[OrganismPart]	Term Source REF	Description	Protocol REF	Performer	Extract Name	Material Type	Term Source REF	Comment[SRA_SAMPLE]	Protocol REF	Performer	Extract Name	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRATEGY]	Comment[LIBRARY_SELECTION]	Comment[LIBRARY_NAME]	Comment[SRA_EXPERIMENT]	Description	Protocol REF	Performer	Date	Assay Name	Technology Type	Term Source REF	Comment[SPOT_LENGTH]	Protocol REF	Parameter Value[Software Versions]	Scan Name	Comment[SRA_RUN]	Comment[SRA_FILE_URI]	Comment[OCG Data Level]	Protocol REF	Derived Array Data File	Comment[SRA_RUN]	Comment[SRA_FILE_URI]	Comment[OCG Data Level]	Comment[ASSEMBLY_NAME]	Protocol REF	Derived Array Data File	Comment[OCG Data Level]	Protocol REF	Derived Array Data File	Comment[OCG Data Level]
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAREAT-09B-01R.exon.quantification.txt	3			
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAREAT-09B-01R.gene.quantification.txt	3			
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAREAT-09B-01R.isoform.quantification.txt	3			
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-PAREAT-09B-01R.results.filtered.tsv	3			
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAREAT-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAREAT.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAREAT-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAREAT.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAREAT-09B-01R.indel.vcf	3			
TARGET-15-PAREAT	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAREAT-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R	RNA	EFO	SRS1761096	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAREAT-09B-01R A59377 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59377	SRX2241949	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAREAT-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PAREAT-09B-01R A59377 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59377.fastq	SRR4419562	@dbgap@:reads/SRP011999/SRS1761096/SRX2241949/SRR4419562/SRR4419562.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-PAREAT-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-PAREAT-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PARWPU-09B-01R.exon.quantification.txt	3			
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PARWPU-09B-01R.gene.quantification.txt	3			
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PARWPU-09B-01R.isoform.quantification.txt	3			
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-PARWPU-09B-01R.results.filtered.tsv	3			
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PARWPU-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PARWPU.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PARWPU-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PARWPU.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PARWPU-09B-01R.indel.vcf	3			
TARGET-15-PARWPU	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PARWPU-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R	RNA	EFO	SRS1761061	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PARWPU-09B-01R A59409 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59409	SRX2227095	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PARWPU-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PARWPU-09B-01R A59409 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59409.fastq	SRR4376034	@dbgap@:reads/SRP011999/SRS1761061/SRX2227095/SRR4376034/SRR4376034.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-PARWPU-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-PARWPU-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PASZVW-09B-01R.exon.quantification.txt	3			
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PASZVW-09B-01R.gene.quantification.txt	3			
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PASZVW-09B-01R.isoform.quantification.txt	3			
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-PASZVW-09B-01R.results.filtered.tsv	3			
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PASZVW-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PASZVW.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PASZVW-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PASZVW.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PASZVW-09B-01R.indel.vcf	3			
TARGET-15-PASZVW	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PASZVW-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R	RNA	EFO	SRS1761057	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PASZVW-09B-01R A59396 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59396	SRX2227091	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PASZVW-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-PASZVW-09B-01R A59396 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59396.fastq	SRR4376040	@dbgap@:reads/SRP011999/SRS1761057/SRX2227091/SRR4376040/SRR4376040.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-PASZVW-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-PASZVW-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAUFIB-09B-01R.exon.quantification.txt	3			
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAUFIB-09B-01R.gene.quantification.txt	3			
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAUFIB-09B-01R.isoform.quantification.txt	3			
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-PAUFIB-09B-01R.results.filtered.tsv	3			
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAUFIB-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAUFIB.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAUFIB-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAUFIB.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAUFIB-09B-01R.indel.vcf	3			
TARGET-15-PAUFIB	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAUFIB-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R	RNA	EFO	SRS1761076	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAUFIB-09B-01R A59397 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59397	SRX2227110	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAUFIB-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAUFIB-09B-01R A59397 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59397.fastq	SRR4376027	@dbgap@:reads/SRP011999/SRS1761076/SRX2227110/SRR4376027/SRR4376027.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-PAUFIB-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-PAUFIB-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAVFTF-09B-01R.exon.quantification.txt	3			
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAVFTF-09B-01R.gene.quantification.txt	3			
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-PAVFTF-09B-01R.isoform.quantification.txt	3			
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-PAVFTF-09B-01R.results.filtered.tsv	3			
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAVFTF-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAVFTF.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAVFTF-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-PAVFTF.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-PAVFTF-09B-01R.indel.vcf	3			
TARGET-15-PAVFTF	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-PAVFTF-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R	RNA	EFO	SRS1761075	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-PAVFTF-09B-01R A59398 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59398	SRX2227109	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-PAVFTF-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-PAVFTF-09B-01R A59398 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59398.fastq	SRR4376044	@dbgap@:reads/SRP011999/SRS1761075/SRX2227109/SRR4376044/SRR4376044.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-PAVFTF-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-PAVFTF-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL003414	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL003414-04A	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL003414-04A-01R	RNA	EFO	SRS2623305	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL003414-04A-01R SJMPAL003414_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL003414_D2	SRX3164818	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL003414-04A-01R SJMPAL003414_D2 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL003414_D2.bam	SRR6010932	@dbgap@:reads/SRP011999/SRS2623305/SRX3164818/SRR6010932/SRR6010932.sra	2	GRCh37						
TARGET-15-SJMPAL004013	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL004013-04A	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL004013-04A-01R	RNA	EFO	SRS2495542	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL004013-04A-01R SJMPAL004013_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL004013_D1	SRX3164819	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL004013-04A-01R SJMPAL004013_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL004013_D1.bam	SRR6010933	@dbgap@:reads/SRP011999/SRS2495542/SRX3164819/SRR6010933/SRR6010933.sra	2	GRCh37						
TARGET-15-SJMPAL005001	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL005001-04A	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL005001-04A-01R	RNA	EFO	SRS2623306	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL005001-04A-01R SJMPAL005001_R4 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL005001_R4	SRX3164820	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL005001-04A-01R SJMPAL005001_R4 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL005001_R4.bam	SRR6010934	@dbgap@:reads/SRP011999/SRS2623306/SRX3164820/SRR6010934/SRR6010934.sra	2	GRCh37						
TARGET-15-SJMPAL011911	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL011911-03A.1	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011911-03A.1-01D	DNA	EFO	SRS2495544	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011911-03A.1-01D SJMPAL011911_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011911_D2	SRX3164822	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011911-03A.1-01D SJMPAL011911_D2 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011911_D2.bam	SRR6010936	@dbgap@:reads/SRP011999/SRS2495544/SRX3164822/SRR6010936/SRR6010936.sra	2	GRCh37						
TARGET-15-SJMPAL011911	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL011911-03A	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011911-03A-01R	RNA	EFO	SRS2623307	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011911-03A-01R SJMPAL011911_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011911_D1	SRX3164821	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011911-03A-01R SJMPAL011911_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011911_D1.bam	SRR6010935	@dbgap@:reads/SRP011999/SRS2623307/SRX3164821/SRR6010935/SRR6010935.sra	2	GRCh37						
TARGET-15-SJMPAL011912	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL011912-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011912-09A-01R	RNA	EFO	SRS2495545	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011912-09A-01R SJMPAL011912_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011912_D1	SRX3164823	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011912-09A-01R SJMPAL011912_D1 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011912_D1.bam	SRR6010937	@dbgap@:reads/SRP011999/SRS2495545/SRX3164823/SRR6010937/SRR6010937.sra	2	GRCh37						
TARGET-15-SJMPAL011913	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL011913-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011913-09A-01R	RNA	EFO	SRS2623309	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011913-09A-01R SJMPAL011913_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011913_D1	SRX3164824	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011913-09A-01R SJMPAL011913_D1 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011913_D1.bam	SRR6010938	@dbgap@:reads/SRP011999/SRS2623309/SRX3164824/SRR6010938/SRR6010938.sra	2	GRCh37						
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011914-09A-01R	RNA	EFO	SRS2495547	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011914-09A-01R SJMPAL011914_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011914_D1	SRX3164825	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011914-09A-01R SJMPAL011914_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011914_D1.bam	SRR6010939	@dbgap@:reads/SRP011999/SRS2495547/SRX3164825/SRR6010939/SRR6010939.sra	2	GRCh37						
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL011914-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL011914-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL011914-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL011914-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL011914-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL011914.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL011914-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL011914.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL011914-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL011914	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL011914-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R	RNA	EFO	SRS1761073	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL011914-09B-01R A59408 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59408	SRX2227107	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL011914-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL011914-09B-01R A59408 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59408.fastq	SRR4376025	@dbgap@:reads/SRP011999/SRS1761073/SRX2227107/SRR4376025/SRR4376025.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL011914-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL011914-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL011915	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL011915-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL011915-09A-01R	RNA	EFO	SRS2623308	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL011915-09A-01R SJMPAL011915_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL011915_D1	SRX3164826	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL011915-09A-01R SJMPAL011915_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL011915_D1.bam	SRR6010940	@dbgap@:reads/SRP011999/SRS2623308/SRX3164826/SRR6010940/SRR6010940.sra	2	GRCh37						
TARGET-15-SJMPAL012417	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL012417-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012417-09A-01R	RNA	EFO	SRS2623310	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012417-09A-01R SJMPAL012417_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012417_D1	SRX3164827	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012417-09A-01R SJMPAL012417_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012417_D1.bam	SRR6010941	@dbgap@:reads/SRP011999/SRS2623310/SRX3164827/SRR6010941/SRR6010941.sra	2	GRCh37						
TARGET-15-SJMPAL012418	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL012418-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012418-09A-01R	RNA	EFO	SRS2495550	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012418-09A-01R SJMPAL012418_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012418_D1	SRX3164828	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012418-09A-01R SJMPAL012418_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012418_D1.bam	SRR6010942	@dbgap@:reads/SRP011999/SRS2495550/SRX3164828/SRR6010942/SRR6010942.sra	2	GRCh37						
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012419-09A-01R	RNA	EFO	SRS2495551	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012419-09A-01R SJMPAL012419_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012419_D1	SRX3164829	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012419-09A-01R SJMPAL012419_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012419_D1.bam	SRR6010943	@dbgap@:reads/SRP011999/SRS2495551/SRX3164829/SRR6010943/SRR6010943.sra	2	GRCh37						
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012419-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012419-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012419-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL012419-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012419-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL012419.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012419-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL012419.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012419-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL012419	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012419-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R	RNA	EFO	SRS1761080	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012419-09B-01R A59395 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59395	SRX2227114	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012419-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012419-09B-01R A59395 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59395.fastq	SRR4376051	@dbgap@:reads/SRP011999/SRS1761080/SRX2227114/SRR4376051/SRR4376051.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL012419-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL012419-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL012420	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL012420-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012420-09A-01R	RNA	EFO	SRS2495552	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012420-09A-01R SJMPAL012420_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012420_D1	SRX3164830	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012420-09A-01R SJMPAL012420_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012420_D1.bam	SRR6010944	@dbgap@:reads/SRP011999/SRS2495552/SRX3164830/SRR6010944/SRR6010944.sra	2	GRCh37						
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012421-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012421-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL012421-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL012421-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012421-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL012421.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012421-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL012421.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL012421-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL012421	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL012421-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R	RNA	EFO	SRS1761084	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL012421-09B-01R A59375 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59375	SRX2241937	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL012421-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL012421-09B-01R A59375 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59375.fastq	SRR4419561	@dbgap@:reads/SRP011999/SRS1761084/SRX2241937/SRR4419561/SRR4419561.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL012421-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL012421-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL012422	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL012422-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012422-09A-01R	RNA	EFO	SRS2495553	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012422-09A-01R SJMPAL012422_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012422_D1	SRX3164831	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012422-09A-01R SJMPAL012422_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012422_D1.bam	SRR6010945	@dbgap@:reads/SRP011999/SRS2495553/SRX3164831/SRR6010945/SRR6010945.sra	2	GRCh37						
TARGET-15-SJMPAL012425	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL012425-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL012425-09A-01R	RNA	EFO	SRS2495554	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL012425-09A-01R SJMPAL012425_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL012425_D1	SRX3164832	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL012425-09A-01R SJMPAL012425_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL012425_D1.bam	SRR6010946	@dbgap@:reads/SRP011999/SRS2495554/SRX3164832/SRR6010946/SRR6010946.sra	2	GRCh37						
TARGET-15-SJMPAL016340	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL016340-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016340-09A-01R	RNA	EFO	SRS2623312	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016340-09A-01R SJMPAL016340_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016340_D1	SRX3164833	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016340-09A-01R SJMPAL016340_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016340_D1.bam	SRR6010947	@dbgap@:reads/SRP011999/SRS2623312/SRX3164833/SRR6010947/SRR6010947.sra	2	GRCh37						
TARGET-15-SJMPAL016341	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016341-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016341-09A-01R	RNA	EFO	SRS2623311	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016341-09A-01R SJMPAL016341_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016341_D1	SRX3164834	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016341-09A-01R SJMPAL016341_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016341_D1.bam	SRR6010948	@dbgap@:reads/SRP011999/SRS2623311/SRX3164834/SRR6010948/SRR6010948.sra	2	GRCh37						
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016342-09A-01R	RNA	EFO	SRS2495557	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016342-09A-01R SJMPAL016342_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016342_D1	SRX3164835	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016342-09A-01R SJMPAL016342_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016342_D1.bam	SRR6010949	@dbgap@:reads/SRP011999/SRS2495557/SRX3164835/SRR6010949/SRR6010949.sra	2	GRCh37						
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL016342-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL016342-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL016342-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL016342-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL016342-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL016342.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL016342-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL016342.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL016342-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL016342	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL016342-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R	RNA	EFO	SRS1761071	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL016342-09B-01R A59410 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59410	SRX2227105	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL016342-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL016342-09B-01R A59410 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59410.fastq	SRR4376035	@dbgap@:reads/SRP011999/SRS1761071/SRX2227105/SRR4376035/SRR4376035.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL016342-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL016342-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL016343	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL016343-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016343-09A-01R	RNA	EFO	SRS2495558	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016343-09A-01R SJMPAL016343_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016343_D1	SRX3164836	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016343-09A-01R SJMPAL016343_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016343_D1.bam	SRR6010950	@dbgap@:reads/SRP011999/SRS2495558/SRX3164836/SRR6010950/SRR6010950.sra	2	GRCh37						
TARGET-15-SJMPAL016344	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL016344-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016344-09A-01R	RNA	EFO	SRS2623313	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016344-09A-01R SJMPAL016344_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016344_D1	SRX3164837	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016344-09A-01R SJMPAL016344_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016344_D1.bam	SRR6010951	@dbgap@:reads/SRP011999/SRS2623313/SRX3164837/SRR6010951/SRR6010951.sra	2	GRCh37						
TARGET-15-SJMPAL016447	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL016447-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016447-09A-01R	RNA	EFO	SRS2623315	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016447-09A-01R SJMPAL016447_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016447_D1	SRX3164838	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016447-09A-01R SJMPAL016447_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016447_D1.bam	SRR6010952	@dbgap@:reads/SRP011999/SRS2623315/SRX3164838/SRR6010952/SRR6010952.sra	2	GRCh37						
TARGET-15-SJMPAL016448	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL016448-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL016448-09A-01R	RNA	EFO	SRS2623314	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL016448-09A-01R SJMPAL016448_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL016448_D1	SRX3164839	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL016448-09A-01R SJMPAL016448_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL016448_D1.bam	SRR6010953	@dbgap@:reads/SRP011999/SRS2623314/SRX3164839/SRR6010953/SRR6010953.sra	2	GRCh37						
TARGET-15-SJMPAL017973	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL017973-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL017973-09A-01R	RNA	EFO	SRS2495562	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL017973-09A-01R SJMPAL017973_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL017973_D1	SRX3164840	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL017973-09A-01R SJMPAL017973_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL017973_D1.bam	SRR6010954	@dbgap@:reads/SRP011999/SRS2495562/SRX3164840/SRR6010954/SRR6010954.sra	2	GRCh37						
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03A	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL017975-03A-01R	RNA	EFO	SRS2495563	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL017975-03A-01R SJMPAL017975_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL017975_D1	SRX3164841	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL017975-03A-01R SJMPAL017975_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL017975_D1.bam	SRR6010955	@dbgap@:reads/SRP011999/SRS2495563/SRX3164841/SRR6010955/SRR6010955.sra	2	GRCh37						
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL017975-03B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL017975-03B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL017975-03B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL017975-03B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL017975-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL017975.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL017975-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL017975.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL017975-03B-01R.indel.vcf	3			
TARGET-15-SJMPAL017975	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL017975-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R	RNA	EFO	SRS1761081	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL017975-03B-01R A59399 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59399	SRX2227115	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL017975-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL017975-03B-01R A59399 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59399.fastq	SRR4376043	@dbgap@:reads/SRP011999/SRS1761081/SRX2227115/SRR4376043/SRR4376043.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL017975-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL017975-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL017977	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL017977-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL017977-09A-01R	RNA	EFO	SRS2495564	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL017977-09A-01R SJMPAL017977_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL017977_D1	SRX3164842	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL017977-09A-01R SJMPAL017977_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL017977_D1.bam	SRR6010956	@dbgap@:reads/SRP011999/SRS2495564/SRX3164842/SRR6010956/SRR6010956.sra	2	GRCh37						
TARGET-15-SJMPAL017978	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL017978-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL017978-09A-01R	RNA	EFO	SRS2495565	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL017978-09A-01R SJMPAL017978_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL017978_D1	SRX3164843	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL017978-09A-01R SJMPAL017978_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL017978_D1.bam	SRR6010957	@dbgap@:reads/SRP011999/SRS2495565/SRX3164843/SRR6010957/SRR6010957.sra	2	GRCh37						
TARGET-15-SJMPAL017981	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL017981-03A	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL017981-03A-01R	RNA	EFO	SRS2495566	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL017981-03A-01R SJMPAL017981_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL017981_D1	SRX3164844	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL017981-03A-01R SJMPAL017981_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL017981_D1.bam	SRR6010958	@dbgap@:reads/SRP011999/SRS2495566/SRX3164844/SRR6010958/SRR6010958.sra	2	GRCh37						
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL019076-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL019076-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL019076-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL019076-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL019076-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL019076.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL019076-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL019076.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL019076-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL019076	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL019076-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R	RNA	EFO	SRS1761091	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL019076-04B-01R A59382 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59382	SRX2241944	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL019076-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL019076-04B-01R A59382 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59382.fastq	SRR4419567	@dbgap@:reads/SRP011999/SRS1761091/SRX2241944/SRR4419567/SRR4419567.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL019076-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL019076-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL022667	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL022667-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL022667-09A-01R	RNA	EFO	SRS2495568	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL022667-09A-01R SJMPAL022667_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL022667_D1	SRX3164845	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL022667-09A-01R SJMPAL022667_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL022667_D1.bam	SRR6010959	@dbgap@:reads/SRP011999/SRS2495568/SRX3164845/SRR6010959/SRR6010959.sra	2	GRCh37						
TARGET-15-SJMPAL040024	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040024-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040024-09A-01R	RNA	EFO	SRS2495569	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040024-09A-01R SJMPAL040024_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040024_D1	SRX3164846	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040024-09A-01R SJMPAL040024_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040024_D1.bam	SRR6010960	@dbgap@:reads/SRP011999/SRS2495569/SRX3164846/SRR6010960/SRR6010960.sra	2	GRCh37						
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040025-09A-01R	RNA	EFO	SRS2495567	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040025-09A-01R SJMPAL040025_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040025_D1	SRX3164847	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040025-09A-01R SJMPAL040025_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040025_D1.bam	SRR6010961	@dbgap@:reads/SRP011999/SRS2495567/SRX3164847/SRR6010961/SRR6010961.sra	2	GRCh37						
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040025-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040025-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040025-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040025-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040025-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040025.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040025-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040025.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040025-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL040025	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040025-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R	RNA	EFO	SRS1761058	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040025-09B-01R A59400 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59400	SRX2227092	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040025-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040025-09B-01R A59400 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59400.fastq	SRR4376029	@dbgap@:reads/SRP011999/SRS1761058/SRX2227092/SRR4376029/SRR4376029.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040025-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040025-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040026	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040026-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040026-09A-01R	RNA	EFO	SRS2495572	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040026-09A-01R SJMPAL040026_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040026_D1	SRX3164848	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040026-09A-01R SJMPAL040026_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040026_D1.bam	SRR6010962	@dbgap@:reads/SRP011999/SRS2495572/SRX3164848/SRR6010962/SRR6010962.sra	2	GRCh37						
TARGET-15-SJMPAL040027	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040027-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040027-09A-01R	RNA	EFO	SRS2495570	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040027-09A-01R SJMPAL040027_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040027_D1	SRX3164849	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040027-09A-01R SJMPAL040027_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040027_D1.bam	SRR6010963	@dbgap@:reads/SRP011999/SRS2495570/SRX3164849/SRR6010963/SRR6010963.sra	2	GRCh37						
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04A	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040028-04A-01R	RNA	EFO	SRS2495571	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040028-04A-01R SJMPAL040028_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040028_D1	SRX3164850	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040028-04A-01R SJMPAL040028_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040028_D1.bam	SRR6010964	@dbgap@:reads/SRP011999/SRS2495571/SRX3164850/SRR6010964/SRR6010964.sra	2	GRCh37						
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040028-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040028-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040028-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040028-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040028-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040028.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040028-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040028.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040028-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL040028	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040028-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R	RNA	EFO	SRS1761059	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040028-04B-01R A59418 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59418	SRX2227093	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040028-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040028-04B-01R A59418 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59418.fastq	SRR4376041	@dbgap@:reads/SRP011999/SRS1761059/SRX2227093/SRR4376041/SRR4376041.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040028-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040028-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040030	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040030-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040030-09A-01R	RNA	EFO	SRS2495573	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040030-09A-01R SJMPAL040030_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040030_D1	SRX3164851	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040030-09A-01R SJMPAL040030_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040030_D1.bam	SRR6010965	@dbgap@:reads/SRP011999/SRS2495573/SRX3164851/SRR6010965/SRR6010965.sra	2	GRCh37						
TARGET-15-SJMPAL040031	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040031-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040031-09A-01R	RNA	EFO	SRS2495574	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040031-09A-01R SJMPAL040031_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040031_D1	SRX3164852	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040031-09A-01R SJMPAL040031_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040031_D1.bam	SRR6010966	@dbgap@:reads/SRP011999/SRS2495574/SRX3164852/SRR6010966/SRR6010966.sra	2	GRCh37						
TARGET-15-SJMPAL040033	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040033-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040033-09A-01R	RNA	EFO	SRS2495575	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040033-09A-01R SJMPAL040033_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040033_D1	SRX3164853	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040033-09A-01R SJMPAL040033_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040033_D1.bam	SRR6010967	@dbgap@:reads/SRP011999/SRS2495575/SRX3164853/SRR6010967/SRR6010967.sra	2	GRCh37						
TARGET-15-SJMPAL040034	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040034-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040034-09A-01R	RNA	EFO	SRS2495576	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040034-09A-01R SJMPAL040034_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040034_D1	SRX3164854	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040034-09A-01R SJMPAL040034_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040034_D1.bam	SRR6010968	@dbgap@:reads/SRP011999/SRS2495576/SRX3164854/SRR6010968/SRR6010968.sra	2	GRCh37						
TARGET-15-SJMPAL040035	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL040035-03A	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040035-03A-01R	RNA	EFO	SRS2495577	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040035-03A-01R SJMPAL040035_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040035_D1	SRX3164855	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040035-03A-01R SJMPAL040035_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040035_D1.bam	SRR6010969	@dbgap@:reads/SRP011999/SRS2495577/SRX3164855/SRR6010969/SRR6010969.sra	2	GRCh37						
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03A	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040036-03A-01R	RNA	EFO	SRS2495578	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040036-03A-01R SJMPAL040036_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040036_D1	SRX3164856	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040036-03A-01R SJMPAL040036_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040036_D1.bam	SRR6010970	@dbgap@:reads/SRP011999/SRS2495578/SRX3164856/SRR6010970/SRR6010970.sra	2	GRCh37						
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040036-03B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040036-03B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040036-03B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040036-03B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040036-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040036.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040036-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040036.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040036-03B-01R.indel.vcf	3			
TARGET-15-SJMPAL040036	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040036-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R	RNA	EFO	SRS1761078	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040036-03B-01R A59420 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59420	SRX2227112	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040036-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040036-03B-01R A59420 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59420.fastq	SRR4376033	@dbgap@:reads/SRP011999/SRS1761078/SRX2227112/SRR4376033/SRR4376033.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040036-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040036-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040037-09A-01R	RNA	EFO	SRS2495579	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040037-09A-01R SJMPAL040037_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040037_D1	SRX3164857	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040037-09A-01R SJMPAL040037_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040037_D1.bam	SRR6010971	@dbgap@:reads/SRP011999/SRS2495579/SRX3164857/SRR6010971/SRR6010971.sra	2	GRCh37						
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040037-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040037-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040037-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040037-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040037-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040037.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040037-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040037.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040037-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL040037	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040037-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R	RNA	EFO	SRS1761077	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040037-09B-01R A59411 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59411	SRX2227111	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040037-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040037-09B-01R A59411 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59411.fastq	SRR4376028	@dbgap@:reads/SRP011999/SRS1761077/SRX2227111/SRR4376028/SRR4376028.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040037-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040037-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040038-09A-01R	RNA	EFO	SRS2495580	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040038-09A-01R SJMPAL040038_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040038_D1	SRX3164858	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040038-09A-01R SJMPAL040038_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040038_D1.bam	SRR6010972	@dbgap@:reads/SRP011999/SRS2495580/SRX3164858/SRR6010972/SRR6010972.sra	2	GRCh37						
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040038-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040038-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040038-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040038-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040038-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040038.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040038-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040038.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040038-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL040038	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040038-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R	RNA	EFO	SRS1761066	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040038-09B-01R A59401 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59401	SRX2227100	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040038-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040038-09B-01R A59401 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59401.fastq	SRR4376048	@dbgap@:reads/SRP011999/SRS1761066/SRX2227100/SRR4376048/SRR4376048.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040038-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040038-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040039-09A-01R	RNA	EFO	SRS2495581	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040039-09A-01R SJMPAL040039_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040039_D1	SRX3164859	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040039-09A-01R SJMPAL040039_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040039_D1.bam	SRR6010973	@dbgap@:reads/SRP011999/SRS2495581/SRX3164859/SRR6010973/SRR6010973.sra	2	GRCh37						
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040039-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040039-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040039-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040039-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040039-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040039.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040039-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL040039.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040039-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL040039	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040039-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R	RNA	EFO	SRS1761056	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040039-09B-01R A59419 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59419	SRX2227090	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040039-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040039-09B-01R A59419 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59419.fastq	SRR4376047	@dbgap@:reads/SRP011999/SRS1761056/SRX2227090/SRR4376047/SRR4376047.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040039-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040039-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL040459-09A-01R	RNA	EFO	SRS2495582	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL040459-09A-01R SJMPAL040459_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL040459_D1	SRX3164860	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL040459-09A-01R SJMPAL040459_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL040459_D1.bam	SRR6010974	@dbgap@:reads/SRP011999/SRS2495582/SRX3164860/SRR6010974/SRR6010974.sra	2	GRCh37						
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040459-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040459-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL040459-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL040459-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040459-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL040459-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL040459	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL040459-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R	RNA	EFO	SRS1761082	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL040459-09B-01R A59412 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59412	SRX2227116	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL040459-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL040459-09B-01R A59412 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59412.fastq	SRR4376045	@dbgap@:reads/SRP011999/SRS1761082/SRX2227116/SRR4376045/SRR4376045.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL040459-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL040459-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL041117-09A-01R	RNA	EFO	SRS2495583	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL041117-09A-01R SJMPAL041117_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL041117_D1	SRX3164861	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL041117-09A-01R SJMPAL041117_D1 run	sequencing assay	EFO	197	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL041117_D1.bam	SRR6010975	@dbgap@:reads/SRP011999/SRS2495583/SRX3164861/SRR6010975/SRR6010975.sra	2	GRCh37						
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041117-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041117-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041117-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL041117-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041117-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041117.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041117-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041117.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041117-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL041117	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041117-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R	RNA	EFO	SRS1761070	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041117-09B-01R A59402 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59402	SRX2227104	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041117-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041117-09B-01R A59402 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4337-1./A59402.fastq	SRR4376049	@dbgap@:reads/SRP011999/SRS1761070/SRX2227104/SRR4376049/SRR4376049.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL041117-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL041117-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL041118	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL041118-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL041118-09A-01R	RNA	EFO	SRS2495584	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL041118-09A-01R SJMPAL041118_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL041118_D1	SRX3164862	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL041118-09A-01R SJMPAL041118_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL041118_D1.bam	SRR6010976	@dbgap@:reads/SRP011999/SRS2495584/SRX3164862/SRR6010976/SRR6010976.sra	2	GRCh37						
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL041119-09A-01R	RNA	EFO	SRS2495585	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL041119-09A-01R SJMPAL041119_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL041119_D1	SRX3164863	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL041119-09A-01R SJMPAL041119_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL041119_D1.bam	SRR6010977	@dbgap@:reads/SRP011999/SRS2495585/SRX3164863/SRR6010977/SRR6010977.sra	2	GRCh37						
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041119-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041119-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041119-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL041119-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041119-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041119.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041119-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041119.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041119-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL041119	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041119-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R	RNA	EFO	SRS1761064	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041119-09B-01R A59403 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59403	SRX2227098	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041119-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041119-09B-01R A59403 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4339-1./A59403.fastq	SRR4376046	@dbgap@:reads/SRP011999/SRS1761064/SRX2227098/SRR4376046/SRR4376046.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL041119-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL041119-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL041120-09A-01R	RNA	EFO	SRS2495586	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL041120-09A-01R SJMPAL041120_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL041120_D1	SRX3164864	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL041120-09A-01R SJMPAL041120_D1 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL041120_D1.bam	SRR6010978	@dbgap@:reads/SRP011999/SRS2495586/SRX3164864/SRR6010978/SRR6010978.sra	2	GRCh37						
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041120-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041120-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL041120-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL041120-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041120-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041120.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041120-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL041120.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL041120-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL041120	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL041120-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R	RNA	EFO	SRS1761060	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL041120-09B-01R A59404 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59404	SRX2227094	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL041120-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL041120-09B-01R A59404 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4341-1./A59404.fastq	SRR4376039	@dbgap@:reads/SRP011999/SRS1761060/SRX2227094/SRR4376039/SRR4376039.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL041120-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL041120-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL041122	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL041122-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL041122-09A-01R	RNA	EFO	SRS2495587	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL041122-09A-01R SJMPAL041122_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL041122_D1	SRX3164865	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL041122-09A-01R SJMPAL041122_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL041122_D1.bam	SRR6010979	@dbgap@:reads/SRP011999/SRS2495587/SRX3164865/SRR6010979/SRR6010979.sra	2	GRCh37						
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042787-09A-01R	RNA	EFO	SRS2495588	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042787-09A-01R SJMPAL042787_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042787_D1	SRX3164866	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042787-09A-01R SJMPAL042787_D1 run	sequencing assay	EFO	195	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042787_D1.bam	SRR6010980	@dbgap@:reads/SRP011999/SRS2495588/SRX3164866/SRR6010980/SRR6010980.sra	2	GRCh37						
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042787-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042787-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042787-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042787-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042787-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042787.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042787-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042787.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042787-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042787	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042787-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R	RNA	EFO	SRS1761074	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042787-09B-01R A59405 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59405	SRX2227108	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042787-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042787-09B-01R A59405 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59405.fastq	SRR4376050	@dbgap@:reads/SRP011999/SRS1761074/SRX2227108/SRR4376050/SRR4376050.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042787-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042787-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042791-09A-01R	RNA	EFO	SRS2495589	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042791-09A-01R SJMPAL042791_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042791_D1	SRX3164867	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042791-09A-01R SJMPAL042791_D1 run	sequencing assay	EFO	194	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042791_D1.bam	SRR6010981	@dbgap@:reads/SRP011999/SRS2495589/SRX3164867/SRR6010981/SRR6010981.sra	2	GRCh37						
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042791-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042791-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042791-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042791-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042791-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042791.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042791-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042791.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042791-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042791	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042791-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R	RNA	EFO	SRS1761068	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042791-09B-01R A59413 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59413	SRX2227102	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042791-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042791-09B-01R A59413 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4343-1./A59413.fastq	SRR4376031	@dbgap@:reads/SRP011999/SRS1761068/SRX2227102/SRR4376031/SRR4376031.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042791-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042791-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042792	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL042792-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042792-09A-01R	RNA	EFO	SRS2495590	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042792-09A-01R SJMPAL042792_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042792_D1	SRX3164868	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042792-09A-01R SJMPAL042792_D1 run	sequencing assay	EFO	196	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042792_D1.bam	SRR6010982	@dbgap@:reads/SRP011999/SRS2495590/SRX3164868/SRR6010982/SRR6010982.sra	2	GRCh37						
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042793-09A-01R	RNA	EFO	SRS2495592	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042793-09A-01R SJMPAL042793_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042793_D1	SRX3164869	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042793-09A-01R SJMPAL042793_D1 run	sequencing assay	EFO	194	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042793_D1.bam	SRR6010983	@dbgap@:reads/SRP011999/SRS2495592/SRX3164869/SRR6010983/SRR6010983.sra	2	GRCh37						
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042793-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042793-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042793-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042793-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042793-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042793-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042793	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042793-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R	RNA	EFO	SRS1761062	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042793-09B-01R A59414 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59414	SRX2227096	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042793-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042793-09B-01R A59414 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59414.fastq	SRR4376032	@dbgap@:reads/SRP011999/SRS1761062/SRX2227096/SRR4376032/SRR4376032.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042793-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042793-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042794-09A-01R	RNA	EFO	SRS2495591	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042794-09A-01R SJMPAL042794_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042794_D1	SRX3164870	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042794-09A-01R SJMPAL042794_D1 run	sequencing assay	EFO	194	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042794_D1.bam	SRR6010984	@dbgap@:reads/SRP011999/SRS2495591/SRX3164870/SRR6010984/SRR6010984.sra	2	GRCh37						
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042794-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042794-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042794-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042794-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042794-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042794.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042794-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042794.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042794-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042794	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042794-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R	RNA	EFO	SRS1761063	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042794-09B-01R A59415 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59415	SRX2227097	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042794-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042794-09B-01R A59415 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59415.fastq	SRR4376042	@dbgap@:reads/SRP011999/SRS1761063/SRX2227097/SRR4376042/SRR4376042.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042794-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042794-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042796	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL042796-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042796-09A-01R	RNA	EFO	SRS2623318	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042796-09A-01R SJMPAL042796_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042796_D1	SRX3164871	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042796-09A-01R SJMPAL042796_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042796_D1.bam	SRR6010985	@dbgap@:reads/SRP011999/SRS2623318/SRX3164871/SRR6010985/SRR6010985.sra	2	GRCh37						
TARGET-15-SJMPAL042797	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL042797-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042797-09A-01R	RNA	EFO	SRS2623316	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042797-09A-01R SJMPAL042797_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042797_D1	SRX3164872	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042797-09A-01R SJMPAL042797_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042797_D1.bam	SRR6010986	@dbgap@:reads/SRP011999/SRS2623316/SRX3164872/SRR6010986/SRR6010986.sra	2	GRCh37						
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042798-09A-01R	RNA	EFO	SRS2623317	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042798-09A-01R SJMPAL042798_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042798_D1	SRX3164873	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042798-09A-01R SJMPAL042798_D1 run	sequencing assay	EFO	197	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042798_D1.bam	SRR6010987	@dbgap@:reads/SRP011999/SRS2623317/SRX3164873/SRR6010987/SRR6010987.sra	2	GRCh37						
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042798-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042798-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042798-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042798-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042798-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042798-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042798	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042798-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R	RNA	EFO	SRS1761072	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042798-09B-01R A59406 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59406	SRX2227106	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042798-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL042798-09B-01R A59406 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59406.fastq	SRR4376036	@dbgap@:reads/SRP011999/SRS1761072/SRX2227106/SRR4376036/SRR4376036.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042798-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042798-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042799-09A-01R	RNA	EFO	SRS2623319	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042799-09A-01R SJMPAL042799_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042799_D1	SRX3164874	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042799-09A-01R SJMPAL042799_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042799_D1.bam	SRR6010988	@dbgap@:reads/SRP011999/SRS2623319/SRX3164874/SRR6010988/SRR6010988.sra	2	GRCh37						
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042799-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042799-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042799-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042799-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042799-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042799-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042799	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042799-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R	RNA	EFO	SRS1761065	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042799-09B-01R A59407 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59407	SRX2227099	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042799-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042799-09B-01R A59407 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4331-1./A59407.fastq	SRR4376037	@dbgap@:reads/SRP011999/SRS1761065/SRX2227099/SRR4376037/SRR4376037.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042799-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042799-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042801-09A-01R	RNA	EFO	SRS2623320	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042801-09A-01R SJMPAL042801_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042801_D1	SRX3164875	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042801-09A-01R SJMPAL042801_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042801_D1.bam	SRR6010989	@dbgap@:reads/SRP011999/SRS2623320/SRX3164875/SRR6010989/SRR6010989.sra	2	GRCh37						
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042801-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042801-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042801-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042801-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042801-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042801-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042801	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042801-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R	RNA	EFO	SRS1761069	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042801-09B-01R A59416 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59416	SRX2227103	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042801-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042801-09B-01R A59416 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4333-1./A59416.fastq	SRR4376030	@dbgap@:reads/SRP011999/SRS1761069/SRX2227103/SRR4376030/SRR4376030.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042801-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042801-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042943	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL042943-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042943-09A-01R	RNA	EFO	SRS2495598	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042943-09A-01R SJMPAL042943_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042943_D1	SRX3164876	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042943-09A-01R SJMPAL042943_D1 run	sequencing assay	EFO	192	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042943_D1.bam	SRR6010990	@dbgap@:reads/SRP011999/SRS2495598/SRX3164876/SRR6010990/SRR6010990.sra	2	GRCh37						
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042946-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042946.gv2.relapse.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042946.gv2.relapse.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R	RNA	EFO	SRS1761086	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-04B-01R A59379 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59379	SRX2241939	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-04B-01R A59379 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59379.fastq	SRR4419553	@dbgap@:reads/SRP011999/SRS1761086/SRX2241939/SRR4419553/SRR4419553.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042946-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042946-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL042946-09A-01R	RNA	EFO	SRS2495600	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL042946-09A-01R SJMPAL042946_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL042946_D1	SRX3164877	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL042946-09A-01R SJMPAL042946_D1 run	sequencing assay	EFO	195	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL042946_D1.bam	SRR6010991	@dbgap@:reads/SRP011999/SRS2495600/SRX3164877/SRR6010991/SRR6010991.sra	2	GRCh37						
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL042946-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL042946-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042946.gv2.primary.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL042946.gv2.primary.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL042946-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL042946	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL042946-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R	RNA	EFO	SRS1761094	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL042946-09B-01R A59378 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59378	SRX2241947	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL042946-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL042946-09B-01R A59378 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59378.fastq	SRR4419556	@dbgap@:reads/SRP011999/SRS1761094/SRX2241947/SRR4419556/SRR4419556.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL042946-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL042946-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043505-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043505-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043505-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043505-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043505-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043505.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043505-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043505.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043505-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043505	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043505-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R	RNA	EFO	SRS1761079	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043505-09B-01R A59417 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59417	SRX2227113	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043505-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043505-09B-01R A59417 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4335-1./A59417.fastq	SRR4376038	@dbgap@:reads/SRP011999/SRS1761079/SRX2227113/SRR4376038/SRR4376038.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043505-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043505-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043506-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043506-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043506-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043506-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043506-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043506.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043506-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043506.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043506-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL043506	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043506-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R	RNA	EFO	SRS1761089	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043506-04B-01R A59376 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59376	SRX2241942	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043506-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043506-04B-01R A59376 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59376.fastq	SRR4419571	@dbgap@:reads/SRP011999/SRS1761089/SRX2241942/SRR4419571/SRR4419571.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043506-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043506-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043507-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043507-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043507-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043507-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043507-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043507.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043507-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043507.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043507-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL043507	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043507-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R	RNA	EFO	SRS1761093	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043507-04B-01R A59380 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59380	SRX2241946	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043507-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043507-04B-01R A59380 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59380.fastq	SRR4419554	@dbgap@:reads/SRP011999/SRS1761093/SRX2241946/SRR4419554/SRR4419554.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043507-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043507-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043508-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043508-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043508-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043508-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043508-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043508.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043508-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043508.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043508-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043508	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043508-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R	RNA	EFO	SRS1761085	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043508-09B-01R A59381 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59381	SRX2241938	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043508-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043508-09B-01R A59381 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59381.fastq	SRR4419565	@dbgap@:reads/SRP011999/SRS1761085/SRX2241938/SRR4419565/SRR4419565.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043508-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043508-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043509	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL043509-04A	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL043509-04A-01R	RNA	EFO	SRS2623321	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL043509-04A-01R SJMPAL043509_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL043509_D1	SRX3164878	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL043509-04A-01R SJMPAL043509_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL043509_D1.bam	SRR6010992	@dbgap@:reads/SRP011999/SRS2623321/SRX3164878/SRR6010992/SRR6010992.sra	2	GRCh37						
TARGET-15-SJMPAL043510	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL043510-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL043510-09A-01R	RNA	EFO	SRS2623322	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL043510-09A-01R SJMPAL043510_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL043510_D1	SRX3164879	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL043510-09A-01R SJMPAL043510_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL043510_D1.bam	SRR6010993	@dbgap@:reads/SRP011999/SRS2623322/SRX3164879/SRR6010993/SRR6010993.sra	2	GRCh37						
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043511-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043511-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043511-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043511-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043511-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043511-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043511	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043511-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R	RNA	EFO	SRS1761099	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043511-09B-01R A59387 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59387	SRX2241952	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043511-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043511-09B-01R A59387 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4338-1./A59387.fastq	SRR4419564	@dbgap@:reads/SRP011999/SRS1761099/SRX2241952/SRR4419564/SRR4419564.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043511-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043511-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043512-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043512-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043512-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043512-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043512-09B-01R.fusion.vcf	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043512-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043512	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043512-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R	RNA	EFO	SRS1761100	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043512-09B-01R A59388 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59388	SRX2241953	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043512-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043512-09B-01R A59388 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4340-1./A59388.fastq	SRR4419559	@dbgap@:reads/SRP011999/SRS1761100/SRX2241953/SRR4419559/SRR4419559.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043512-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043512-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043513-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043513-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043513-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043513-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043513-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043513.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043513-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043513.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043513-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL043513	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043513-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R	RNA	EFO	SRS1761092	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043513-04B-01R A59389 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59389	SRX2241945	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043513-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043513-04B-01R A59389 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4342-1./A59389.fastq	SRR4419568	@dbgap@:reads/SRP011999/SRS1761092/SRX2241945/SRR4419568/SRR4419568.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043513-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043513-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043514	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL043514-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL043514-09A-01R	RNA	EFO	SRS2623324	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL043514-09A-01R SJMPAL043514_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL043514_D1	SRX3164880	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL043514-09A-01R SJMPAL043514_D1 run	sequencing assay	EFO	197	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL043514_D1.bam	SRR6010994	@dbgap@:reads/SRP011999/SRS2623324/SRX3164880/SRR6010994/SRR6010994.sra	2	GRCh37						
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043767-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043767-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043767-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043767-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043767-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043767.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043767-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043767.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043767-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043767	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043767-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R	RNA	EFO	SRS1761095	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043767-09B-01R A59383 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59383	SRX2241948	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043767-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043767-09B-01R A59383 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59383.fastq	SRR4419560	@dbgap@:reads/SRP011999/SRS1761095/SRX2241948/SRR4419560/SRR4419560.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043767-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043767-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043768-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043768-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043768-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043768-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043768-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043768.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043768-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043768.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043768-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043768	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043768-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R	RNA	EFO	SRS1761087	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043768-09B-01R A59384 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59384	SRX2241940	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043768-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043768-09B-01R A59384 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59384.fastq	SRR4419566	@dbgap@:reads/SRP011999/SRS1761087/SRX2241940/SRR4419566/SRR4419566.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043768-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043768-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043769-03B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043769-03B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043769-03B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043769-03B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043769-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043769.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043769-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043769.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043769-03B-01R.indel.vcf	3			
TARGET-15-SJMPAL043769	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043769-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R	RNA	EFO	SRS1761088	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043769-03B-01R A59385 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59385	SRX2241941	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043769-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043769-03B-01R A59385 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59385.fastq	SRR4419558	@dbgap@:reads/SRP011999/SRS1761088/SRX2241941/SRR4419558/SRR4419558.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043769-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043769-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043770-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043770-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043770-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043770-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043770-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043770.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043770-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043770.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043770-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043770	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043770-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R	RNA	EFO	SRS1761101	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043770-09B-01R A59386 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59386	SRX2241954	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043770-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043770-09B-01R A59386 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59386.fastq	SRR4419570	@dbgap@:reads/SRP011999/SRS1761101/SRX2241954/SRR4419570/SRR4419570.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043770-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043770-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043771-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043771-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043771-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043771-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043771-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043771.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043771-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043771.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043771-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043771	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043771-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R	RNA	EFO	SRS1761090	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043771-09B-01R A59390 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59390	SRX2241943	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043771-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-05-03	TARGET-15-SJMPAL043771-09B-01R A59390 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4344-1./A59390.fastq	SRR4419557	@dbgap@:reads/SRP011999/SRS1761090/SRX2241943/SRR4419557/SRR4419557.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043771-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043771-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043772-04B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043772-04B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043772-04B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043772-04B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043772-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043772.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043772-04B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043772.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043772-04B-01R.indel.vcf	3			
TARGET-15-SJMPAL043772	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043772-04B	organism part	EFO	Bone Marrow	NCIt	"Recurrent Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R	RNA	EFO	SRS1761083	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043772-04B-01R A59391 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59391	SRX2241936	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043772-04B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043772-04B-01R A59391 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4330-1./A59391.fastq	SRR4419569	@dbgap@:reads/SRP011999/SRS1761083/SRX2241936/SRR4419569/SRR4419569.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043772-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043772-04B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043773-03B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043773-03B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043773-03B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043773-03B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043773-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043773.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043773-03B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043773.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043773-03B-01R.indel.vcf	3			
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-03B	organism part	EFO	Peripheral Blood	NCIt	"Primary Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R	RNA	EFO	SRS1761098	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043773-03B-01R A59392 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59392	SRX2241951	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043773-03B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043773-03B-01R A59392 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4332-1./A59392.fastq	SRR4419555	@dbgap@:reads/SRP011999/SRS1761098/SRX2241951/SRR4419555/SRR4419555.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043773-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043773-03B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043773	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Recurrent Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043773-40A	organism part	EFO	Peripheral Blood	NCIt	"Recurrent Blood Derived Cancer - Peripheral Blood"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL043773-40A-01R	RNA	EFO	SRS2623323	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL043773-40A-01R SJMPAL043773_R1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL043773_R1	SRX3164881	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL043773-40A-01R SJMPAL043773_R1 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL043773_R1.bam	SRR6010995	@dbgap@:reads/SRP011999/SRS2623323/SRX3164881/SRR6010995/SRR6010995.sra	2	GRCh37						
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043774-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043774-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043774-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043774-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043774-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043774.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043774-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043774.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043774-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043774	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043774-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R	RNA	EFO	SRS1761097	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043774-09B-01R A59393 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59393	SRX2241950	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043774-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043774-09B-01R A59393 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4334-1./A59393.fastq	SRR4419563	@dbgap@:reads/SRP011999/SRS1761097/SRX2241950/SRR4419563/SRR4419563.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043774-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043774-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043775-09B-01R.exon.quantification.txt	3			
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043775-09B-01R.gene.quantification.txt	3			
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-Expression:01	TARGET-15-SJMPAL043775-09B-01R.isoform.quantification.txt	3			
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-Fusion-DeFuse:01	TARGET-15-SJMPAL043775-09B-01R.results.filtered.tsv	3			
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043775-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043775.gv2.transcriptome.fusions.somatic.large.summary.tsv	3
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043775-09B-01R.fusion.vcf	3	bcgsc.ca:Protocol:mRNAseq-StructVariant-GenomeValidator:01	TARGET-15-SJMPAL043775.gv2.transcriptome.fusions.somatic.small.summary.tsv	3
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-StructVariant-TransABySS:02	TARGET-15-SJMPAL043775-09B-01R.indel.vcf	3			
TARGET-15-SJMPAL043775	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt	Discovery	TARGET-15-SJMPAL043775-09B	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R	RNA	EFO	SRS1761067	bcgsc.ca:Protocol:mRNAseq-LibraryPrep-Illumina-rRnaDepleted-StrandSpecific:01	BC Cancer Agency Michael Smith Genome Sciences Centre	TARGET-15-SJMPAL043775-09B-01R A59394 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	A59394	SRX2227101	"RNA-Seq analysis of mixed phenotype acute leukemia sample TARGET-15-SJMPAL043775-09B-01R using Illumina HiSeq 2500"	bcgsc.ca:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	BCCA	2016-04-28	TARGET-15-SJMPAL043775-09B-01R A59394 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:mRNAseq-BaseCall-Illumina:01	Illumina RTA 1.18.66.3	IX4336-1./A59394.fastq	SRR4376026	@dbgap@:reads/SRP011999/SRS1761067/SRX2227101/SRR4376026/SRR4376026.sra	1							bcgsc.ca:Protocol:mRNAseq-VariantCall-SNVMix2:01	TARGET-15-SJMPAL043775-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.vcf	3	bcgsc.ca:Protocol:mRNAseq-SNVMix2-Vcf2Tab:01	TARGET-15-SJMPAL043775-09B-01R.varFilter.eff.dbSNP_v137.COSMIC_v64.annotations.tab_delimited.txt	3
TARGET-15-SJMPAL044948	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL044948-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL044948-09A-01R	RNA	EFO	SRS2623325	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL044948-09A-01R SJMPAL044948_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL044948_D1	SRX3164882	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL044948-09A-01R SJMPAL044948_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL044948_D1.bam	SRR6010996	@dbgap@:reads/SRP011999/SRS2623325/SRX3164882/SRR6010996/SRR6010996.sra	2	GRCh37						
TARGET-15-SJMPAL044949	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL044949-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL044949-09A-01R	RNA	EFO	SRS2623327	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL044949-09A-01R SJMPAL044949_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL044949_D1	SRX3164883	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL044949-09A-01R SJMPAL044949_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL044949_D1.bam	SRR6010997	@dbgap@:reads/SRP011999/SRS2623327/SRX3164883/SRR6010997/SRR6010997.sra	2	GRCh37						
TARGET-15-SJMPAL044950	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL044950-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL044950-09A-01R	RNA	EFO	SRS2623326	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL044950-09A-01R SJMPAL044950_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL044950_D1	SRX3164884	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL044950-09A-01R SJMPAL044950_D1 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL044950_D1.bam	SRR6010998	@dbgap@:reads/SRP011999/SRS2623326/SRX3164884/SRR6010998/SRR6010998.sra	2	GRCh37						
TARGET-15-SJMPAL044953	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL044953-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL044953-09A-01R	RNA	EFO	SRS2495607	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL044953-09A-01R SJMPAL044953_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL044953_D1	SRX3164885	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL044953-09A-01R SJMPAL044953_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL044953_D1.bam	SRR6010999	@dbgap@:reads/SRP011999/SRS2495607/SRX3164885/SRR6010999/SRR6010999.sra	2	GRCh37						
TARGET-15-SJMPAL046466	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046466-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046466-09A-01R	RNA	EFO	SRS2623328	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046466-09A-01R SJMPAL046466_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046466_D1	SRX3164886	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046466-09A-01R SJMPAL046466_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046466_D1.bam	SRR6011000	@dbgap@:reads/SRP011999/SRS2623328/SRX3164886/SRR6011000/SRR6011000.sra	2	GRCh37						
TARGET-15-SJMPAL046467	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046467-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046467-09A-01R	RNA	EFO	SRS2495609	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046467-09A-01R SJMPAL046467_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046467_D1	SRX3164887	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046467-09A-01R SJMPAL046467_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046467_D1.bam	SRR6011001	@dbgap@:reads/SRP011999/SRS2495609/SRX3164887/SRR6011001/SRR6011001.sra	2	GRCh37						
TARGET-15-SJMPAL046468	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046468-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046468-09A-01R	RNA	EFO	SRS2623329	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046468-09A-01R SJMPAL046468_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046468_D1	SRX3164888	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046468-09A-01R SJMPAL046468_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046468_D1.bam	SRR6011002	@dbgap@:reads/SRP011999/SRS2623329/SRX3164888/SRR6011002/SRR6011002.sra	2	GRCh37						
TARGET-15-SJMPAL046469	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046469-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046469-09A-01R	RNA	EFO	SRS2623330	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046469-09A-01R SJMPAL046469_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046469_D1	SRX3164889	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046469-09A-01R SJMPAL046469_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046469_D1.bam	SRR6011003	@dbgap@:reads/SRP011999/SRS2623330/SRX3164889/SRR6011003/SRR6011003.sra	2	GRCh37						
TARGET-15-SJMPAL046470	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046470-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046470-09A-01R	RNA	EFO	SRS2623331	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046470-09A-01R SJMPAL046470_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046470_D1	SRX3164890	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046470-09A-01R SJMPAL046470_D1 run	sequencing assay	EFO	199	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046470_D1.bam	SRR6011004	@dbgap@:reads/SRP011999/SRS2623331/SRX3164890/SRR6011004/SRR6011004.sra	2	GRCh37						
TARGET-15-SJMPAL046471	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046471-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046471-09A-01R	RNA	EFO	SRS2623332	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046471-09A-01R SJMPAL046471_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046471_D1	SRX3164891	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046471-09A-01R SJMPAL046471_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046471_D1.bam	SRR6011005	@dbgap@:reads/SRP011999/SRS2623332/SRX3164891/SRR6011005/SRR6011005.sra	2	GRCh37						
TARGET-15-SJMPAL046472	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Mixed Phenotype Acute Leukemia	NCIt		TARGET-15-SJMPAL046472-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE	TARGET-15-SJMPAL046472-09A-01R	RNA	EFO	SRS2623333	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE	TARGET-15-SJMPAL046472-09A-01R SJMPAL046472_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJMPAL046472_D1	SRX3164892	"Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit."	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-15-SJMPAL046472-09A-01R SJMPAL046472_D1 run	sequencing assay	EFO	202	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJMPAL046472_D1.bam	SRR6011006	@dbgap@:reads/SRP011999/SRS2623333/SRX3164892/SRR6011006/SRR6011006.sra	2	GRCh37						
TARGET-20-SJAML003320	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML003320-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML003320-09A-02R	RNA	EFO	SRS2695302	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML003320-09A-02R SJAML003320_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML003320_D2	SRX3401155	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML003320-09A-02R SJAML003320_D2 run	sequencing assay	EFO	198	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML003320_D2.bam	SRR6300230	@dbgap@:reads/SRP011999/SRS2695302/SRX3401155/SRR6300230/SRR6300230.sra	2	GRCh37						
TARGET-20-SJAML003322	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML003322-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML003322-09A-02R	RNA	EFO	SRS2695303	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML003322-09A-02R SJAML003322_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML003322_D2	SRX3401156	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML003322-09A-02R SJAML003322_D2 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML003322_D2.bam	SRR6300231	@dbgap@:reads/SRP011999/SRS2695303/SRX3401156/SRR6300231/SRR6300231.sra	2	GRCh37						
TARGET-20-SJAML007112	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML007112-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML007112-09A-02R	RNA	EFO	SRS2695304	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML007112-09A-02R SJAML007112_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML007112_D2	SRX3401157	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML007112-09A-02R SJAML007112_D2 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML007112_D2.bam	SRR6300232	@dbgap@:reads/SRP011999/SRS2695304/SRX3401157/SRR6300232/SRR6300232.sra	2	GRCh37						
TARGET-20-SJAML007113	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML007113-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML007113-09A-02R	RNA	EFO	SRS2695305	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML007113-09A-02R SJAML007113_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML007113_D2	SRX3401158	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML007113-09A-02R SJAML007113_D2 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML007113_D2.bam	SRR6300233	@dbgap@:reads/SRP011999/SRS2695305/SRX3401158/SRR6300233/SRR6300233.sra	2	GRCh37						
TARGET-20-SJAML016570	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML016570-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML016570-09A-02R	RNA	EFO	SRS2695306	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML016570-09A-02R SJAML016570_D2 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML016570_D2	SRX3401159	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML016570-09A-02R SJAML016570_D2 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML016570_D2.bam	SRR6300234	@dbgap@:reads/SRP011999/SRS2695306/SRX3401159/SRR6300234/SRR6300234.sra	2	GRCh37						
TARGET-20-SJAML040268	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML040268-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML040268-09A-03R	RNA	EFO	SRS2695307	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML040268-09A-03R SJAML040268_D3 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML040268_D3	SRX3401160	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML040268-09A-03R SJAML040268_D3 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML040268_D3.bam	SRR6300235	@dbgap@:reads/SRP011999/SRS2695307/SRX3401160/SRR6300235/SRR6300235.sra	2	GRCh37						
TARGET-20-SJAML045734	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045734-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045734-09A-01R	RNA	EFO	SRS2695308	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045734-09A-01R SJAML045734_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045734_D1	SRX3401161	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045734-09A-01R SJAML045734_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045734_D1.bam	SRR6300236	@dbgap@:reads/SRP011999/SRS2695308/SRX3401161/SRR6300236/SRR6300236.sra	2	GRCh37						
TARGET-20-SJAML045735	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045735-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045735-09A-01R	RNA	EFO	SRS2695309	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045735-09A-01R SJAML045735_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045735_D1	SRX3401162	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045735-09A-01R SJAML045735_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045735_D1.bam	SRR6300237	@dbgap@:reads/SRP011999/SRS2695309/SRX3401162/SRR6300237/SRR6300237.sra	2	GRCh37						
TARGET-20-SJAML045736	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045736-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045736-09A-01R	RNA	EFO	SRS2695310	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045736-09A-01R SJAML045736_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045736_D1	SRX3401163	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045736-09A-01R SJAML045736_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045736_D1.bam	SRR6300238	@dbgap@:reads/SRP011999/SRS2695310/SRX3401163/SRR6300238/SRR6300238.sra	2	GRCh37						
TARGET-20-SJAML045737	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	male	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045737-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045737-09A-01R	RNA	EFO	SRS2695311	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045737-09A-01R SJAML045737_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045737_D1	SRX3401164	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045737-09A-01R SJAML045737_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045737_D1.bam	SRR6300239	@dbgap@:reads/SRP011999/SRS2695311/SRX3401164/SRR6300239/SRR6300239.sra	2	GRCh37						
TARGET-20-SJAML045738	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045738-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045738-09A-01R	RNA	EFO	SRS2695312	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045738-09A-01R SJAML045738_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045738_D1	SRX3401165	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045738-09A-01R SJAML045738_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045738_D1.bam	SRR6300240	@dbgap@:reads/SRP011999/SRS2695312/SRX3401165/SRR6300240/SRR6300240.sra	2	GRCh37						
TARGET-20-SJAML045739	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045739-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045739-09A-01R	RNA	EFO	SRS2695313	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045739-09A-01R SJAML045739_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045739_D1	SRX3401166	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045739-09A-01R SJAML045739_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045739_D1.bam	SRR6300241	@dbgap@:reads/SRP011999/SRS2695313/SRX3401166/SRR6300241/SRR6300241.sra	2	GRCh37						
TARGET-20-SJAML045740	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045740-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045740-09A-01R	RNA	EFO	SRS2695314	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045740-09A-01R SJAML045740_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045740_D1	SRX3401167	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045740-09A-01R SJAML045740_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045740_D1.bam	SRR6300242	@dbgap@:reads/SRP011999/SRS2695314/SRX3401167/SRR6300242/SRR6300242.sra	2	GRCh37						
TARGET-20-SJAML045741	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045741-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045741-09A-01R	RNA	EFO	SRS2695315	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045741-09A-01R SJAML045741_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045741_D1	SRX3401168	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045741-09A-01R SJAML045741_D1 run	sequencing assay	EFO	201	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045741_D1.bam	SRR6300243	@dbgap@:reads/SRP011999/SRS2695315/SRX3401168/SRR6300243/SRR6300243.sra	2	GRCh37						
TARGET-20-SJAML045742	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Childhood Acute Myeloid Leukemia	NCIt		TARGET-20-SJAML045742-09A	organism part	EFO	Bone Marrow	NCIt	"Primary Blood Derived Cancer - Bone Marrow"	stjude.org:Protocol:RNA-Extraction-TRIzol:01	STJUDE-phs000464	TARGET-20-SJAML045742-09A-01R	RNA	EFO	SRS2695316	stjude.org:Protocol:mRNAseq-LibraryPrep-Illumina:01	STJUDE-phs000464	TARGET-20-SJAML045742-09A-01R SJAML045742_D1 library	PAIRED	TRANSCRIPTOMIC	RNA-Seq	cDNA	SJAML045742_D1	SRX3401169	""Total RNA quality and quantity were assessed on Agilent RNA6000 chips and Qubit. RNA-seq libraries were prepared from 500 ng of total RNA for each sample following Illumina RNA-seq protocols, including DNase treatment and phenol purification, cDNA conversion, fragmentation by Covaris Ultrasonicator, end repair, deoxyadenosine tailing, adaptor ligation and PCR amplification (ten cycles). Libraries with a 10 pM concentration were clustered on an Illumina cBot, and each flow cell was loaded onto a HiSeq instrument for sequencing using the Illumina 2 x 100 bp sequencing kit.""	stjude.org:Protocol:mRNAseq-Sequence-Illumina-HiSeq2500:01	StJude		TARGET-20-SJAML045742-09A-01R SJAML045742_D1 run	sequencing assay	EFO	200	stjude.org:Protocol:mRNAseq-BaseCall-Illumina:01						stjude.org:Protocol:mRNAseq-ReadAlign:01	SJAML045742_D1.bam	SRR6300244	@dbgap@:reads/SRP011999/SRS2695316/SRX3401169/SRR6300244/SRR6300244.sra	2	GRCh37						
