The evolutionary history of human colitis-associated colorectal cancer

Dac ID Contact Person Email Access Information
EGAC00001000917 Trevor Graham t [dot] graham [at] qmul [dot] ac [dot] uk No additional information is available

This DAC controls 5 datasets:

Dataset ID Description Technology Samples
EGAD00001004270 Genome-wide copy number profiling was performed using low-pass whole genome sequencing on archival non-dysplastic mucosa (n=9), low-grade dysplasia (LGD; n=30), high-grade dysplasia (HGD; n=13), mixed LGD/HGD (n=7) and CA-CRC (n=19). Illumina NovaSeq 6000 81
EGAD00001004275 Exome sequencing was performed on fresh-frozen multiple regions of carcinoma, adjacent non-cancerous mucosa and blood from 12 CA-CRC patients (n=55 exomes). Illumina Genome Analyzer II 64
EGAD00001004966 Dataset of adenoma and colon cancer multi-region sequencing. Publication: Nat Ecol Evol. 2018 Oct;2(10):1661-1672. doi: 10.1038/s41559-018-0642-z. Epub 2018 Aug 31. Illumina HiSeq 2500,unspecified 139
EGAD00010001586 This data set contains an .Rdata file for all the processed segmentation profiles from 81 lpWGS samples included used in downstream analyses from Github repository Evo_history_CACRC. Lastly, there is an .Rdata object with 50 segmentations for 50 total samples from 25 sporadic SNP adenomas used in the comparison with colitis samples. Low Pass Whole Genome Sequencing (LP-WGS) 131
EGAD00010001587 This dataset contains 30 idat files each from 15 SNP array runs on patient colitis-associated colorectal cancer tumours. All phenotypes are cancer. See Baker et al. 2018 Supplementary Table 2 for patient details of 12 tumours used in the analyses in the publication. SNP array 15