A Comprehensive Catalogue of Somatic Mutations from a Human Cancer Genome
We have carried out complete sequencing of the genome of the human male maligant melanoma cell line COLO-829 using the Illumina Genome Analyzer II. We generated a sequencing library with a median insert size of ~200 bp following random fragmentation and gel fractionation of the genomic DNA. We sequenced 75 bases from both ends of these templates to cover the COLO-829 genome to an average depth of more than 40x. We have carried out purity-filtering (PF) to remove mixed reads, where two or more different template molecules are close enough on the surface of the flow-cell to form a mixed or overlapping cluster. No other filtering of the data has been carried out prior to submission. We have also submitted sequence data for a lymphoblastoid control cell line COLO-829BL from the same individual.
- Type: Whole Genome Sequencing
- Archiver: European Genome-Phenome Archive (EGA)
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 |
---|---|---|---|
EGAD00000000055 | Illumina Genome Analyzer II | 2 |
Publications | Citations |
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A comprehensive catalogue of somatic mutations from a human cancer genome.
Nature 463: 2010 191-196 |
1047 |
Shimmer: detection of genetic alterations in tumors using next-generation sequence data.
Bioinformatics 29: 2013 1498-1503 |
44 |
HapMuC: somatic mutation calling using heterozygous germ line variants near candidate mutations.
Bioinformatics 30: 2014 3302-3309 |
14 |
Towards accurate characterization of clonal heterogeneity based on structural variation.
BMC Bioinformatics 15: 2014 299 |
7 |
novoBreak: local assembly for breakpoint detection in cancer genomes.
Nat Methods 14: 2017 65-67 |
55 |
Deep convolutional neural networks for accurate somatic mutation detection.
Nat Commun 10: 2019 1041 |
48 |
Fusion transcripts and their genomic breakpoints in polyadenylated and ribosomal RNA-minus RNA sequencing data.
Gigascience 10: 2021 giab080 |
8 |