GEO series

Affymetrix 250K StyI SNP array data across multiple human cancer types

GSE19399 Homo sapiens Genome variation profiling by SNP array 826 samples Submitted 2010/02/18 Platform GPL3720

Summary

A powerful way to discover key genes playing causal roles in oncogenesis is to identify genomic regions that undergo frequent alteration in human cancers. We have reported high-resolution analyses of somatic copy-number alterations (SCNAs) from 3131 cancer specimens, belonging largely to 26 histological types. We identify 158 regions of focal SCNA that are altered at significant frequency across multiple cancer types, of which 122 cannot be explained by the presence of a known cancer target gene located within these regions. Several candidate genes and families are enriched among these regions of focal SCNA, including members of the BCL2 family of apoptosis regulators and the NF-κΒ pathway. We show that cancer cells harboring amplifications surrounding the MCL1 and BCL2L1 anti-apoptotic genes depend upon expression of these genes for survival. Finally, we demonstrate that a large majority of SCNAs identified in individual cancer types are present in multiple cancer types.

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Direct links to NCBI, no account and no request form: the whole study as GSE19399_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 826 samples.

Whole study · RAW.tar ↓ Series matrix ↓ All supplementary files ↗

Also filed as BioProject PRJNA121763. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 20164920) ↗

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