Study

Dissection of the molecular complexity of colorectal cancer in pre-clinical models identifies predictive signatures of sensitivity to EGFR inhibitors

Study ID Alternative Stable ID Type
EGAS00001001752 Other

Study Description

Colorectal carcinoma (CRC) is a heterogeneous tumour entity, with only a fraction of the tumours responding to currently available therapies. A detailed understanding of the biology and genetics of CRC is a prerequisite for precision medicine. To address this challenge in clinical oncology, the OncoTrack consortium recruited 106 CRC patients (stages I-IV) and developed an integrated pre-clinical platform analysing drug sensitivity in the established matched patient-derived in vivo and in vitro models, 46 three-dimensional cell cultures and 59 xenografts, recapitulating many of the molecular features of the donor tumours. We generated extensive omics information on patient tumours and their derived models used to generate a compendium of drug sensitivity data. We could distinguish tumour molecular sub-groups responding differently to therapy and identified a novel independent predictor of sensitivity to the EGFR inhibitor cetuximab. The findings reported here will advance our understanding of CRC and its response to therapy.

Study Datasets 64 datasets.

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
EGAD00001002072
RNAseq on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample
Illumina HiSeq 2000 23
EGAD00001002073
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 12
EGAD00001002074
RNAseq on Illumina HiSeq2000/2500 of WNT reporter of PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 3
EGAD00001002075
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 1
EGAD00001002076
RNAseq of Patient-derived xenograft derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 19
EGAD00001002077
RNAseq on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample
Illumina HiSeq 2000 87
EGAD00001002078
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 28
EGAD00001002079
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 1
EGAD00001002080
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 37
EGAD00001002081
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 4
EGAD00001002082
Whole-genome sequencing on Illumina HiSeq2000/2500 of Blood EDTA
Illumina HiSeq 2000 69
EGAD00001002083
Whole-genome sequencing on Illumina HiSeq2000/2500 of normal colon control tissue
Illumina HiSeq 2000 2
EGAD00001002084
Whole-genome sequencing on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample
Illumina HiSeq 2000 23
EGAD00001002085
Whole-genome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 12
EGAD00001002086
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 1
EGAD00001002087
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 19
EGAD00001002088
Whole-genome sequencing on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample
Illumina HiSeq 2000 87
EGAD00001002089
Whole-genome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 25
EGAD00001002090
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 1
EGAD00001002091
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 38
EGAD00001002092
Whole-genome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 5
EGAD00001002093
Whole-exome sequencing on Illumina HiSeq2000/2500 of Blood EDTA
Illumina HiSeq 2000 33
EGAD00001002094
Whole-exome sequencing on Illumina HiSeq2000/2500 of normal colon control tissue
Illumina HiSeq 2000 2
EGAD00001002095
Whole-exome sequencing on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample
Illumina HiSeq 2000 14
EGAD00001002096
Whole-exome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 12
EGAD00001002097
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 1
EGAD00001002098
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer metastasis sample
Illumina HiSeq 2000 19
EGAD00001002099
Whole-exome sequencing on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample
Illumina HiSeq 2000 55
EGAD00001002100
Whole-exome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 25
EGAD00001002101
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from PDO culture derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 1
EGAD00001002102
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 38
EGAD00001002103
Whole-exome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from Patient-derived xenograft derived from colorectal cancer primary tumor sample
Illumina HiSeq 2000 5
EGAD00001002104
Whole-exome sequencing on AB 5500xl Genetic Analyzer of Blood EDTA
AB 5500xl Genetic Analyzer 76
EGAD00001002105
Whole-exome sequencing on AB 5500xl Genetic Analyzer of colorectal cancer metastasis sample
AB 5500xl Genetic Analyzer,AB 5500xl-W Genetic Analysis System 16
EGAD00001002106
Whole-exome sequencing on AB 5500xl Genetic Analyzer of Patient-derived xenograft derived from colorectal cancer metastasis sample
AB 5500xl Genetic Analyzer 1
EGAD00001002107
Whole-exome sequencing on AB 5500xl Genetic Analyzer of colorectal cancer primary tumor sample
AB 5500xl Genetic Analyzer,AB 5500xl-W Genetic Analysis System 66
EGAD00001002883
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer sample of a validation cohort of 60 PDX
Illumina HiSeq 2000 60
EGAD00001002884
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample at early/late passages
Illumina HiSeq 2000 8
EGAD00001003362
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample (EPO2_cohort)
Illumina HiSeq 2000 49
EGAD00001003363
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample (EPO2_cohort)
Illumina HiSeq 2000 114
EGAD00001003364
RNAseq on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 4
EGAD00001003365
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003366
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 10
EGAD00001003367
RNAseq on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 7
EGAD00001003368
RNAseq on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003369
RNAseq on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 13
EGAD00001003370
Whole-genome sequencing on Illumina HiSeq2000/2500 of Blood EDTA (OT2_cohort)
Illumina HiSeq 2000 10
EGAD00001003371
Whole-genome sequencing on Illumina HiSeq2000/2500 of normal colon control tissue (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003372
Whole-genome sequencing on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 4
EGAD00001003373
Whole-genome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003374
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 8
EGAD00001003375
Whole-genome sequencing on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 7
EGAD00001003376
Whole-genome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 12
EGAD00001003377
Whole-exome sequencing on Illumina HiSeq2000/2500 of Blood EDTA (OT2_cohort)
Illumina HiSeq 2000 10
EGAD00001003378
Whole-exome sequencing on Illumina HiSeq2000/2500 of normal colon control tissue (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003379
Whole-exome sequencing on Illumina HiSeq2000/2500 of colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 4
EGAD00001003380
Whole-exome sequencing on Illumina HiSeq2000/2500 of PDO culture derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 1
EGAD00001003381
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer metastasis sample (OT2_cohort)
Illumina HiSeq 2000 10
EGAD00001003383
Whole-exome sequencing on Illumina HiSeq2000/2500 of colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 7
EGAD00001003384
Whole-exome sequencing on Illumina HiSeq2000/2500 of Patient-derived xenograft derived from colorectal cancer primary tumor sample (OT2_cohort)
Illumina HiSeq 2000 14
EGAD00001003385
Whole-exome sequencing on AB 5500xl Genetic Analyzer of Blood EDTA (OT2_cohort)
AB 5500 Genetic Analyzer 1
EGAD00001003386
Whole-exome sequencing on AB 5500xl Genetic Analyzer of colorectal cancer primary tumor sample (OT2_cohort)
AB 5500 Genetic Analyzer 1
EGAD00010001161
Oncotrack metastatic samples using 450K. The shared AF analysis files oncotrackDNAmAnalysis.R and oncotrackDNAmBetaScores.txt which were applied for both Oncotrack_450K_tumor (EGAD00010001162) and Oncotrack_450K_metastatic (EGAD00010001161) datasets are included on Oncotrack_450K_tumor (EGAD00010001162) dataset.
Illumina 450K 15
EGAD00010001162
Oncotrack primary tumor samples using 450K. The dataset includes shared AF analysis files oncotrackDNAmAnalysis.R and oncotrackDNAmBetaScores.txt which were applied for both Oncotrack_450K_tumor (EGAD00010001162) and Oncotrack_450K_metastatic (EGAD00010001161) datasets.
Illumina 450K 67

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