Source Name	Provider	Material Type	Term Source REF	Characteristics[Organism]	Term Source REF	Characteristics[Sex]	Term Source REF	Characteristics[DiseaseState]	Term Source REF	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	Protocol REF	Performer	Extract Name	Comment[LIBRARY_LAYOUT]	Comment[LIBRARY_SOURCE]	Comment[LIBRARY_STRATEGY]	Comment[LIBRARY_SELECTION]	Comment[NOMINAL_LENGTH]	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]
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1786	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786	DNA	EFO	SRS242051	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786 HS1786 library	PAIRED	GENOMIC	WXS	Hybrid Selection	239	HS1786	SRX085146	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1786 HS1786 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Bustard 1.5.0	HS1786-1..fastq	SRR316258	@dbgap@:reads/SRP020237/SRS242051/SRX085146/SRR316258/SRR316258.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1786_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1786	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786	DNA	EFO	SRS242051	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786 HS1786 library	PAIRED	GENOMIC	WXS	Hybrid Selection	239	HS1786	SRX085146	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-12-10	HS1786 HS1786 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Bustard 1.5.0	HS1786-1..1.fastq	SRR316259	@dbgap@:reads/SRP020237/SRS242051/SRX085146/SRR316259/SRR316259.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1786_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1786	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786	DNA	EFO	SRS242051	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1786 HS1786 library	PAIRED	GENOMIC	WXS	Hybrid Selection	239	HS1786	SRX085146	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1786 HS1786 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Bustard 1.5.0					bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1786-bam.bam	SRR390290	@dbgap@:reads/SRP020237/SRS242051/SRX085146/SRR390290/SRR390290.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1786_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1787	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787	DNA	EFO	SRS242052	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787 HS1787 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1787	SRX085147	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1787 HS1787 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0;Bustard 1.5.0	HS1787-1..fastq	SRR316260	@dbgap@:reads/SRP020237/SRS242052/SRX085147/SRR316260/SRR316260.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1787_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1787	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787	DNA	EFO	SRS242052	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787 HS1787 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1787	SRX085147	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-12-15	HS1787 HS1787 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0	HS1787-1..1.fastq	SRR316261	@dbgap@:reads/SRP020237/SRS242052/SRX085147/SRR316261/SRR316261.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1787_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
04-11156	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1787	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787	DNA	EFO	SRS242052	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1787 HS1787 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1787	SRX085147	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1787 HS1787 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0					bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1787-bam.bam	SRR390291	@dbgap@:reads/SRP020237/SRS242052/SRX085147/SRR390291/SRR390291.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1787_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1788	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788	DNA	EFO	SRS242116	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788 HS1788 library	PAIRED	GENOMIC	WXS	Hybrid Selection	192	HS1788	SRX085148	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-02-17	HS1788 HS1788 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0;Illumina RTA 1.5.35.0	HS1788-1..fastq	SRR316262	@dbgap@:reads/SRP020237/SRS242116/SRX085148/SRR316262/SRR316262.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1788_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1788	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788	DNA	EFO	SRS242116	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788 HS1788 library	PAIRED	GENOMIC	WXS	Hybrid Selection	192	HS1788	SRX085148	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-04-15	HS1788 HS1788 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0	HS1788-1..1.fastq	SRR316263	@dbgap@:reads/SRP020237/SRS242116/SRX085148/SRR316263/SRR316263.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1788_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1788	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788	DNA	EFO	SRS242116	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1788 HS1788 library	PAIRED	GENOMIC	WXS	Hybrid Selection	192	HS1788	SRX085148	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1788 HS1788 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0					bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1788-bam.bam	SRR390292	@dbgap@:reads/SRP020237/SRS242116/SRX085148/SRR390292/SRR390292.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1788_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1789	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789	DNA	EFO	SRS242117	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789 HS1789 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1789	SRX085149	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-02-17	HS1789 HS1789 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0;Illumina RTA 1.5.35.0	HS1789-1..fastq	SRR316264	@dbgap@:reads/SRP020237/SRS242117/SRX085149/SRR316264/SRR316264.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1789_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1789	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789	DNA	EFO	SRS242117	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789 HS1789 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1789	SRX085149	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-04-15	HS1789 HS1789 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0	HS1789-1..1.fastq	SRR316265	@dbgap@:reads/SRP020237/SRS242117/SRX085149/SRR316265/SRR316265.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1789_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
08-15460	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Diffuse Large B-Cell Lymphoma	NCIt	HS1789	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789	DNA	EFO	SRS242117	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1789 HS1789 library	PAIRED	GENOMIC	WXS	Hybrid Selection		HS1789	SRX085149	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1789 HS1789 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.6.32.0					bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1789-bam.bam	SRR390293	@dbgap@:reads/SRP020237/SRS242117/SRX085149/SRR390293/SRR390293.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1789_2_lanes_dupsFlagged.varFilter.anno1.maf.txt	3
06-12968	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Follicular Lymphoma	NCIt	HS1843	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1843	DNA	EFO	SRS242053	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1843 HS1843 library	PAIRED	GENOMIC	WXS	Hybrid Selection	185	HS1843	SRX085150	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-01-08	HS1843 HS1843 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0	HS1843-1..fastq	SRR316266	@dbgap@:reads/SRP020237/SRS242053/SRX085150/SRR316266/SRR316266.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1843_1_lane_dupsFlagged.varFilter.anno1.maf.txt	3
06-12968	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Follicular Lymphoma	NCIt	HS1843	organism part	EFO	Solid Tumor	NCIt	"LYMPH NODE"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1843	DNA	EFO	SRS242053	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1843 HS1843 library	PAIRED	GENOMIC	WXS	Hybrid Selection	185	HS1843	SRX085150	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2009-11-27	HS1843 HS1843 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0					bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1843-bam.bam	SRR390294	@dbgap@:reads/SRP020237/SRS242053/SRX085150/SRR390294/SRR390294.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1843_1_lane_dupsFlagged.varFilter.anno1.maf.txt	3
06-12968	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Follicular Lymphoma	NCIt	HS1846	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1846	DNA	EFO	SRS242054	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1846 HS1846 library	PAIRED	GENOMIC	WXS	Hybrid Selection	194	HS1846	SRX085151	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA	2010-01-08	HS1846 HS1846 run	sequencing assay	EFO	152	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01	Illumina RTA 1.5.35.0	HS1846-1..fastq	SRR316267	@dbgap@:reads/SRP020237/SRS242054/SRX085151/SRR316267/SRR316267.sra	1							bcgsc.ca:Protocol:WXS-VariantCall:01	HS1846_1_lane_dupsFlagged.varFilter.anno1.maf.txt	3
06-12968	Children's Oncology Group	whole organism	EFO	Homo sapiens	NCBITaxon	female	NCIt	Follicular Lymphoma	NCIt	HS1846	organism part	EFO	Normal Tissue	NCIt	"PERIPHERAL BLOOD"	bcgsc.ca:Protocol:DNA-Extraction:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1846	DNA	EFO	SRS242054	bcgsc.ca:Protocol:WXS-LibraryPrep-Illumina:01	bcgsc.ca:Protocol:WXS-ExomeCapture-Illumina:01	BC Cancer Agency Michael Smith Genome Sciences Centre	HS1846 HS1846 library	PAIRED	GENOMIC	WXS	Hybrid Selection	194	HS1846	SRX085151	"Genomic DNA was extracted following the protocol supplied in the Qiagen AllPrep DNA/RNA Mini Kit (Cat#80204), and quantified using a Quant-iT dsDNA HS assay kit and a Qubit fluorometer (Invitrogen). Approximately 500ng DNA was sheared for 75 seconds at duty cycle “20%” and intensity of “5” using a Covaris E210, and run on an 8% PAGE gel. A 200 to 250bp DNA size fraction was excised and eluted from the gel slice, and was ligated to Illumina paired-end adapters following the standard protocol. The adapter ligated DNA was amplified for 10 cycles using the PE primer set (Illumina) and purified as a pre-exome capture library. The DNA was assessed using an Agilent DNA 1000 Series II assay, and 500ng DNA was hybridized to the 38Mb Human exon probe using the All Exon Kit (Cat#G3362) following the Agilent SureSelect Paired-End Target Enrichment System Protocol (Version 1.0, September 2009). The captured DNA was purified using a Qiagen MinElute column, and amplified for 12 cycles using PE primer set. The PCR products were run on an 8% PAGE gel, the desired size range (320 to 370bp) was excised and purified, and was then assessed using an Agilent DNA 1000 series II assay and diluted to 10nM. The final library DNA concentration was confirmed using a Quant-iT dsDNA HS assay kit and Qubit fluorometer. Clusters were generated on the Illumina cluster station and paired-end reads generated using an Illumina Genome Analyzer (GAIIx) following the manufacturer’s instructions."	bcgsc.ca:Protocol:WXS-Sequence-Illumina-GAIIx:01	BCCA		HS1846 HS1846 run	sequencing assay	EFO	150	bcgsc.ca:Protocol:WXS-BaseCall-Illumina:01						bcgsc.ca:Protocol:WXS-ReadAlign:01	HS1846-bam.bam	SRR390295	@dbgap@:reads/SRP020237/SRS242054/SRX085151/SRR390295/SRR390295.sra	2	NCBI36_BCCAGSC_variant	bcgsc.ca:Protocol:WXS-VariantCall:01	HS1846_1_lane_dupsFlagged.varFilter.anno1.maf.txt	3
