DAC for Technology Development Office (TDO) at BC Cancer

Dac ID Contact Person Email Access Information
EGAC00001001425 Sarah Jane Lee tdoadmin [at] phsa [dot] ca No additional information is available

This DAC controls 8 datasets:

Dataset ID Description Technology Samples
EGAD00001005739 Single-cell gene expression was profiled for 22 Hodgkin lymphoma tumors and 5 reactive lymph nodes (2 replicates were performed for RLN-1). Library preparation was performed with the 10x Chromium platform (3' version 2 assay). Sequencing was performed on an Illumina NextSeq. The BAM files were generated from the raw sequencing data using Cell Ranger (v2.1.0) mkfastq and count commands. Illumina HiSeq 2500 28
EGAD00001005780 Whole-exome sequencing for 95 PMBCL cases (including 21 with matching normal DNA) was performed using a targeted capture approach with the SureSelect Human All Exon V6+UTR bait (Agilent Technologies) followed by massively parallel sequencing of enriched fragments on the HiSeq2500 platform (Illumina). Five libraries were pooled per lane and a 125bp paired-end mode was used. Tumor and normal DNA samples were sequenced to an average of 115X (SD 24X). All reads were aligned to the human reference genome (hg19) using bwa-mem version 0.7.5a29 with optical and PCR duplicates removed using the Picard tool. 116
EGAD00001006087 18 DLBCL genomes 18
EGAD00001006159 Tumor and normal exomes for 51 MCL patients and tumor and normal genomes for 34 MCL patients. 170
EGAD00001006221 This dataset contains merged data from the 22 Hodgkin lymphoma and 5 reactive lymph node samples, including count data and cell cluster assignments. 28
EGAD00001006268 RNAseq BAM files for Coding and non-coding mantle cell lymphoma driver mutations 102
EGAD00001006328 Tumor and matching normal exomes for 28 GZL cases (n=56) and targeted capture sequencing for 42 GZL cases with 3 matching normals and 2 pooled normals (n=47) 103
EGAD00001007006 Tumor exomes for 15 DLBCL samples with PMBL GE signature, with 6 matching normal exomes and 1 pooled normal exome. 22