Genome Landscape of Primary Pancreatic Ductal Adenocarcinoma

Study ID	Alternative Stable ID	Type
EGAS00001000154		Other

Study ID

Alternative Stable ID

Type

EGAS00001000154

Other

Study Description

The purpose of the Australian ICGC Pancreatic Cancer Genome Sequencing Initiativestudy is to identify the common driving mutations underlying the initiation anddevelopment of Pancreatic Adenocarcinoma in a large cohort of pancreatic cancerpatients (n=350). Matched genome sequences will be generated from normal tissue(duodenum) and resected primary tumour tissue in each patient using exome andwhole genome sequencing. The complete repertoire of somatic mutations will bedetermined (substitutions, indels, copy number changes and structural changes).Where possible, matched transcriptome sequencing will also be carried out todetermine locus activity, which mutations are actively expressed and whichrearrangements give rise to gene-fusion transcripts.

Dataset ID	Description	Technology	Samples
EGAD00001000049	Pancreatic adenocarcinoma QCMG 20110901 Pancreatic adenocarcinoma QCMG 20110901	AB SOLiD 4 System,AB SOLiD System 3.0	26
EGAD00001000096	Pancreatic adenocarcinoma QCMG 20120201 Pancreatic adenocarcinoma QCMG 20120201	AB SOLiD 4 System	166
EGAD00001000323	Sequencing data for Australian Pancreatic Cancer study submitted 20130102 Sequencing data for Australian Pancreatic Cancer study submitted 20130102	AB SOLiD 4 System,Illumina HiSeq 2000	200
EGAD00001000371	Sequencing data for PDAC cell lines generated by QCMG Sequencing data for PDAC cell lines generated by QCMG	Illumina HiSeq 2000,Illumina HiSeq 2500	54
EGAD00001000660	Analysis .bam files from HiSeq sequencing of Australian ICGC PDAC study samples, submitted 20130826 Analysis .bam files from HiSeq sequencing of Australian ICGC PDAC study samples, submitted 20130826		353
EGAD00001002192	Additional sequencing data for 173 donors in EGAS00001000154, a study of Pancreatic Ductal Adenocarcinoma. WGS libraries were used for high-cellularity cases, WXS sequencing to high depth on low-cellularity cases. HiSeq 2xxx platform was used in all cases. The analysis files associated with this dataset are merged, de-duplicated bams aligned against GRCh37, one tumour and one normal bam per donor. Additional sequencing data for 173 donors in EGAS00001000154, a study of Pancreatic Ductal Adenocarcinoma. WGS libraries were used for high-cellularity cases, WXS sequencing to high depth on low-cellularity cases. HiSeq 2xxx platform was used in all cases. The analysis files associated with this dataset are merged, de-duplicated bams aligned against GRCh37, one tumour and one normal bam per donor.		346
EGAD00001003298	BAM outputs from RSEM (https://deweylab.github.io/RSEM/) analysis of RNASeq sequencing on HiSeq platform of tumour samples from 95 pancreatic adenocarcinoma cases. BAM outputs from RSEM (https://deweylab.github.io/RSEM/) analysis of RNASeq sequencing on HiSeq platform of tumour samples from 95 pancreatic adenocarcinoma cases.		96

Dataset ID

Description

Technology

Samples

EGAD00001000049

Pancreatic adenocarcinoma QCMG 20110901

AB SOLiD 4 System,AB SOLiD System 3.0

EGAD00001000096

Pancreatic adenocarcinoma QCMG 20120201

AB SOLiD 4 System

166

EGAD00001000323

Sequencing data for Australian Pancreatic Cancer study submitted 20130102

AB SOLiD 4 System,Illumina HiSeq 2000

200

EGAD00001000371

Sequencing data for PDAC cell lines generated by QCMG

Illumina HiSeq 2000,Illumina HiSeq 2500

EGAD00001000660

Analysis .bam files from HiSeq sequencing of Australian ICGC PDAC study samples, submitted 20130826

353

EGAD00001002192

Additional sequencing data for 173 donors in EGAS00001000154, a study of Pancreatic Ductal Adenocarcinoma. WGS libraries were used for high-cellularity cases, WXS sequencing to high depth on low-cellularity cases. HiSeq 2xxx platform was used in all cases. The analysis files associated with this dataset are merged, de-duplicated bams aligned against GRCh37, one tumour and one normal bam per donor.

346

EGAD00001003298

BAM outputs from RSEM (https://deweylab.github.io/RSEM/) analysis of RNASeq sequencing on HiSeq platform of tumour samples from 95 pancreatic adenocarcinoma cases.

Study

Study Description

Study Datasets 7 datasets.

Who archives the data?

Publications

Citations

The European Genome-phenome Archive (EGA) is part of the ELIXIR infrastructure.