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ICGC Oesophageal adenocarcinoma - Barrett's samples

The oesophageal project will focus on adenocarcinoma which is increasing in incidence in the UK and other developed countries and has a very poor outcome. The primary aims of this project are to deeply sequence tumour and normal genomic DNA (including the precursor condition Barrett’s oesophagus when material is available) to provide a comprehensive catalogue of somatic mutations. This will be achieved through a UK-wide network of hospitals involved in a research collaboration called the OCCAMS consortium. The goal of this project is to use high quality clinical material with accurately annotated clinic-pathological, treatment and outcome data.

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID Description Technology Samples
EGAD00001001379 Illumina HiSeq 2000 29
EGAD00001001394 Illumina HiSeq 2000 -
EGAD00001003840 Illumina HiSeq 2000 3
EGAD00001003900 Illumina HiSeq 2000 83
EGAD00001003901 Illumina HiSeq 2000 3
EGAD00001004023 Illumina HiSeq 2000 52
EGAD00001004289 Illumina HiSeq 2000 Illumina MiSeq 60
EGAD00001005375 Illumina HiSeq 2000 73
EGAD00001005385 Illumina HiSeq 2000 64
EGAD00001005388 Illumina HiSeq 2000 -
EGAD00001005434 Illumina HiSeq 2000 -
EGAD00001005438 unspecified -
EGAD00001005455 -
EGAD00001006033 Illumina HiSeq 2500 Illumina HiSeq 4000 1000
EGAD00001006349 Illumina HiSeq 2000 -
EGAD00001006353 Illumina HiSeq 2000 -
EGAD00001006874 Illumina HiSeq 2000 Illumina NovaSeq 6000 10
EGAD00001006882 Illumina HiSeq 2000 -
EGAD00001007496 HiSeq X Five Illumina HiSeq 2000 -
EGAD00001010074 unspecified 16
EGAD00001011076 Illumina HiSeq 2000 unspecified -
EGAD00001011187 HiSeq X Five Illumina HiSeq 2000 Illumina NovaSeq 6000 unspecified 63
EGAD00001011188 unspecified 170
EGAD00001011189 Illumina HiSeq 2500 Illumina HiSeq 4000 1
EGAD00001011190 Illumina HiSeq 2000 unspecified 49
EGAD00001011191 HiSeq X Five Illumina HiSeq 2000 Illumina NovaSeq 6000 unspecified 42
EGAD00001011196 HiSeq X Five Illumina HiSeq 2000 Illumina NovaSeq 6000 unspecified 6
EGAD00001011255 unspecified 28
EGAD00001011269 Illumina HiSeq 2000 -
EGAD00010001795 Illumina 78
EGAD00010001838 Illumina 150
EGAD00010001972 Illumina 107
Publications Citations
Identification of Subtypes of Barrett's Esophagus and Esophageal Adenocarcinoma Based on DNA Methylation Profiles and Integration of Transcriptome and Genome Data.
Gastroenterology 158: 2020 1682-1697.e1
42
Genomic copy number predicts esophageal cancer years before transformation.
Nat Med 26: 2020 1726-1732
50
Multi-omic cross-sectional cohort study of pre-malignant Barrett's esophagus reveals early structural variation and retrotransposon activity.
Nat Commun 13: 2022 1407
11
Genomic signatures of past and present chromosomal instability in Barrett's esophagus and early esophageal adenocarcinoma.
Nat Commun 14: 2023 6203
3