Cancer vulnerabilities unveiled by genomic loss

Deepak Nijhawan, Travis I. Zack, Yin Ren, Matthew R. Strickland, Rebecca Lamothe, Steven E. Schumacher, Aviad Tsherniak, Henrike C. Besche, Joseph Rosenbluh, Shyemaa Shehata, Glenn S. Cowley, Barbara A. Weir, Alfred L. Goldberg, Jill P. Mesirov, David E. Root, Sangeeta N. Bhatia, Rameen Beroukhim, William C. Hahn

Research output: Contribution to journalArticleResearchpeer-review

167 Citations (Scopus)


Due to genome instability, most cancers exhibit loss of regions containing tumor suppressor genes and collateral loss of other genes. To identify cancer-specific vulnerabilities that are the result of copy number losses, we performed integrated analyses of genome-wide copy number and RNAi profiles and identified 56 genes for which gene suppression specifically inhibited the proliferation of cells harboring partial copy number loss of that gene. These CYCLOPS (copy number alterations yielding cancer liabilities owing to partial loss) genes are enriched for spliceosome, proteasome, and ribosome components. One CYCLOPS gene, PSMC2, encodes an essential member of the 19S proteasome. Normal cells express excess PSMC2, which resides in a complex with PSMC1, PSMD2, and PSMD5 and acts as a reservoir protecting cells from PSMC2 suppression. Cells harboring partial PSMC2 copy number loss lack this complex and die after PSMC2 suppression. These observations define a distinct class of cancer-specific liabilities resulting from genome instability. 

Original languageEnglish
Pages (from-to)842-854
Number of pages13
Issue number4
Publication statusPublished - 17 Aug 2012
Externally publishedYes

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