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EGAD00010000148

ABSTRACT: tumour samples using Affymetrix Genome-Wide SNP6.0 arrays

PROVIDER: EGAD00010000148 | EGA |

REPOSITORIES: EGA

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The clonal and mutational evolution spectrum of primary triple-negative breast cancers.

Shah Sohrab P SP Roth Andrew A Goya Rodrigo R Oloumi Arusha A Ha Gavin G Zhao Yongjun Y Turashvili Gulisa G Ding Jiarui J Tse Kane K Haffari Gholamreza G Bashashati Ali A Prentice Leah M LM Khattra Jaswinder J Burleigh Angela A Yap Damian D Bernard Virginie V McPherson Andrew A Shumansky Karey K Crisan Anamaria A Giuliany Ryan R Heravi-Moussavi Alireza A Rosner Jamie J Lai Daniel D Birol Inanc I Varhol Richard R Tam Angela A Dhalla Noreen N Zeng Thomas T Ma Kevin K Chan Simon K SK Griffith Malachi M Moradian Annie A Cheng S-W Grace SW Morin Gregg B GB Watson Peter P Gelmon Karen K Chia Stephen S Chin Suet-Feung SF Curtis Christina C Rueda Oscar M OM Pharoah Paul D PD Damaraju Sambasivarao S Mackey John J Hoon Kelly K Harkins Timothy T Tadigotla Vasisht V Sigaroudinia Mahvash M Gascard Philippe P Tlsty Thea T Costello Joseph F JF Meyer Irmtraud M IM Eaves Connie J CJ Wasserman Wyeth W WW Jones Steven S Huntsman David D Hirst Martin M Caldas Carlos C Marra Marco A MA Aparicio Samuel S

Nature 20120404 7403

Primary triple-negative breast cancers (TNBCs), a tumour type defined by lack of oestrogen receptor, progesterone receptor and ERBB2 gene amplification, represent approximately 16% of all breast cancers. Here we show in 104 TNBC cases that at the time of diagnosis these cancers exhibit a wide and continuous spectrum of genomic evolution, with some having only a handful of coding somatic aberrations in a few pathways, whereas others contain hundreds of coding somatic mutations. High-throughput RN ...[more]

PMID: 22495314

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2012-11-26 | GSE37977 | GEO

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Project description:We performed a comparison analysis of the Affymetrix arrays SNP6.0 genome wide array (SNP6.0) and cytogenetic 2.7M whole-genome array (Cyto2.7M) using nine human samples. We compared the two array types with respect to four parameters including the size and breakpoints of the alterations detected, the actual CN assigned to the CNVs as well as long stretches of loss of heterozygosity. Overall, we found very good consistency between the two types of array on all parameters compared, even in regions with very complex changes. This GEO submission contains the Cyto2.7M data. GEO submission, GSE37977 contains the SNP6.0 data.

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