EGAD00001001048
Samples from Edwards et al 2015 - doi:10.1186/s12864-015-1685-z
Illumina HiSeq 2000
-
EGAD00001001394
Samples from Ross Innes et. al 2015 - doi:10.1038/ng.3357
Illumina HiSeq 2000
-
EGAD00001001960
upcoming publication
Illumina HiSeq 2000
-
EGAD00001002218
Sequencing data for ICGC Oesophageal Adenocarcinoma tissue samples - 129_cohort
EAC whole genomic sequencing data - Publication Secrier & Li et al., 2016, Nature Genetics
Illumina HiSeq 2000
10
EGAD00001002241
Sequencing data for ICGC Oesophageal Adenocarcinoma tissue samples - chemo_cohort
Illumina HiSeq 2000
6
EGAD00001002259
None
Illumina HiSeq 2000
37
EGAD00001002260
Sequencing data for ICGC Oesophageal Adenocarcinoma tissue samples - 129_rnaseq
EAC expression data - Publication Secrier & Li et al., 2016, Nature Genetics
Illumina HiSeq 2000
15
EGAD00001002689
ICGC Oesophageal Adenocarcinoma tissue samples
Illumina HiSeq 2000
-
EGAD00001003292
WGS sequencing for cases from the ICGC ESAD-UK project
Tumours 50x Normals 30x
HiSeq X
BAM files
These samples are all available in ICGC release 24
Illumina HiSeq 2000
34
EGAD00001003580
WGS sequencing for 303 cases (620 samples) from the ICGC ESAD-UK project
Tumours 50x Normals 30x
HiSeq X
BAM files
These samples are all available in ICGC release 26
Illumina HiSeq 2000
38
EGAD00001003839
None
Illumina HiSeq 2000
26
EGAD00001003900
None
Illumina HiSeq 2000
83
EGAD00001004007
Data supporting: "Esophageal adenocarcinoma organoid cultures recapitulate human disease heterogeneity and provide a model for clonality studies and precision therapeutics." Li et al.
WGS (BAM files)
RNAseq (BAM files)
Tumours, organoids, normals
Illumina HiSeq 2000
53
EGAD00001004021
None
Illumina HiSeq 2000
32
EGAD00001004028
WGS sequencing for 63 cases (126 samples) from the ICGC ESAD-UK project
Tumours 50x Normals 30x
HiSeq X
BAM files
These samples are earmarked for inclusion in ICGC release 27 (deferred to release 28)
Illumina HiSeq 2000
-
EGAD00001004029
WGS sequencing for 43 cases (86 samples) from the ICGC ESAD-UK project
Tumours 50x Normals 30x
HiSeq X
BAM files
These samples are earmarked for inclusion in ICGC release 28
Illumina HiSeq 2000
86
EGAD00001004137
WGS sequencing for 409 cases (832 samples) from the ICGC ESAD-UK project
Tumours 50x Normals 30x
HiSeq X
BAM files
These samples are all available in ICGC release 28
Illumina HiSeq 2000
-
EGAD00001004289
Data supporting: "Low-cost and clinically applicable copy number profiling using repeat DNA." Abujudeh et al.
DNA WGS (BAM files)
DNA fastSeq (fastq files)
Tumours, Barrett's, normals.
Illumina HiSeq 2000
Illumina MiSeq
60
EGAD00001004417
Data supporting: "The landscape of selection in 551 Esophageal Adenocarcinomas defines genomic biomarkers for the clinic." Frankell et al.
WGS (BAM files)
379 matched tumour-normal pairs
Illumina HiSeq 2000
-
EGAD00001004423
Data supporting: "The landscape of selection in 551 Esophageal Adenocarcinomas defines genomic biomarkers for the clinic." Frankell et al.
RNAseq (BAM files)
116 tumours
Illumina HiSeq 2000
-
EGAD00001004775
Data supporting: "Patient-specific detection of cancer genes reveals recurrently perturbed processes in esophageal adenocarcinoma." Mourikis et al.
WGS (BAM files)
521 samples
Illumina HiSeq 2000
-
EGAD00001004776
Data supporting: "Patient-specific detection of cancer genes reveals recurrently perturbed processes in esophageal adenocarcinoma." Mourikis et al.
RNAseq (BAM files)
137 samples
Illumina HiSeq 2000
-
EGAD00001005375
None
Illumina HiSeq 2000
73
EGAD00001005376
None
Illumina HiSeq 2000
11
EGAD00001005377
None
Illumina HiSeq 2000
10
EGAD00001005383
None
Illumina HiSeq 2000
20
EGAD00001005388
Data supporting: “Deep molecular phenotyping reveals the identity of Barrett’s esophagus and its malignant transition.” Nowicki-Osuch, Zhuang et al.
RNAseq (BAM files)
241 tumour samples
Illumina HiSeq 2000
-
EGAD00001005434
Data supporting: "Genomic evidence supports a clonal diaspora model for metastases of esophageal adenocarcinoma." Noorani et al.
WGS (BAM files)
134 samples for 18 cases
Includes primary, lymph-node, distant metastatic, Barrett's and normal samples.
Illumina HiSeq 2000
-
EGAD00001005915
Data supporting: "Repurposing of KLF5 activates a cell cycle signature during the progression from Barrett’s Oesophagus to Oesophageal Adenocarcinoma." Rogerson et al.
RNA-seq data
2 samples
Illumina HiSeq 2000
-
EGAD00001006170
Data supporting: "The mutREAD method detects mutational signatures from low quantities of cancer DNA." Perner et al.
WGS, sWGS, WES, and reduced representation sequencing data
tumour and normal samples
BAM files
Illumina HiSeq 4000
48
EGAD00001006373
Data supporting: “Longitudinal tracking of 97 esophageal adenocarcinomas (EAC) using liquid biopsy sampling.” Ococks, Frankell, Masque Soler et al.
ctDNA (BAM files)
333 samples
NextSeq 500
48
EGAD00001006738
Data supporting: "Evidence that polyploidy in esophageal adenocarcinoma originates from mitotic slippage caused by defective chromosome attachments" Scott et al.
WGS and RNAseq sequencing data
Organoid, tumour and normal samples
BAM files
Illumina HiSeq 2000
7
EGAD00001007493
Data supporting: "Genomic analysis of response to neoadjuvant chemotherapy in esophageal adenocarcinoma" Izadi et al.
WGS for tumour and normal samples.
RNAseq for tumour samples.
HiSeq X Five
Illumina HiSeq 2000
Illumina NovaSeq 6000
8
EGAD00001007496
Data supporting: "Widespread reorganisation of the regulatory chromatin landscape facilitates resistance to inhibition of oncogenic ERBB2 signalling" Ogden et al.
WGS for tumour and normal samples.
RNAseq for tumour samples.
HiSeq X Five
Illumina HiSeq 2000
-
EGAD00001007785
Data from 496 OCCAMS (Oesophageal Cancer Clinical And Molecular Stratification) cases.
WGS
BAM files
496x oesophageal adenocarcinoma samples
496x normal samples
HiSeq X Five
Illumina HiSeq 2000
Illumina NovaSeq 6000
-
EGAD00001007808
Data supporting "Interplay of processes shapes structural variations undergoing selection in oesophageal adenocarcinoma" Ng, Contino et al.
WGS (BAM files)
383 oesophageal adenocarcinoma samples
383 normal samples
Illumina HiSeq 2000
-
EGAD00001007809
Data supporting: "Interplay of processes shapes structural variations undergoing selection in oesophageal adenocarcinoma" Ng, Contino et al.
RNAseq (BAM files)
214 oesophageal adenocarcinoma samples
Illumina HiSeq 2000
-
EGAD00001011065
Data supporting: "SMAD4 and KCNQ3 Alterations are Associated with Lymph Node Metastases in Oesophageal Adenocarcinoma" RNAseq (FASTQ files) 6 samples
unspecified
6
EGAD00001011076
Data supporting: "The transcriptional landscape of endogenous retroelements delineates esophageal adenocarcinoma subtypes" RNAseq for 279 samples
Illumina HiSeq 2000
unspecified
-
EGAD00001011095
Data supporting: "The transcriptional landscape of endogenous retroelements delineates esophageal adenocarcinoma subtypes" WGS for 452 samples
HiSeq X Five
Illumina HiSeq 2000
-
EGAD00001011187
Data supporting: "Understanding the malignant potential of gastric metaplasia of the oesophagus and its relevance to Barrett’s Oesophagus surveillance: individual-level data analysis" Black et al (WGS OACs/BOs/normals)
HiSeq X Five
Illumina HiSeq 2000
Illumina NovaSeq 6000
unspecified
63
EGAD00001011188
Data supporting: "Understanding the malignant potential of gastric metaplasia of the oesophagus and its relevance to Barrett’s Oesophagus surveillance: individual-level data analysis" Black et al (WES OACs/BOs/normals)
unspecified
170
EGAD00001011190
Data supporting: "TBC" Ganguli et al (RNA for 394 samples)
Illumina HiSeq 2000
unspecified
49
EGAD00001011191
Data supporting: "TBC" Ganguli et al (WGS for 1298 samples)
HiSeq X Five
Illumina HiSeq 2000
Illumina NovaSeq 6000
unspecified
42
EGAD00001011196
Data supporting: "Mutational signature dynamics shaping the evolution of oesophageal adenocarcinoma" Abbas et al (WGS for 1397 samples)
HiSeq X Five
Illumina HiSeq 2000
Illumina NovaSeq 6000
unspecified
6
EGAD00001011269
Data supporting: "Mutational signature dynamics shaping the evolution of oesophageal adenocarcinoma" Abbas et al (RNA for 197 samples)
Illumina HiSeq 2000
-
EGAD00010001822
Array data for oesophageal and related samples – sj_paper_methyl_tumour_release
Illumina
285