Type: GCD status: Curated disease: Cancer species: Homo sapiens citation: Distinct patterns of DNA copy number alteration are associated with different clinicopathological features and gene-expression subtypes of breast cancer. Bergamaschi A, Kim YH, Wany P, Sorlie T, Hernandez-Boussard T, Lonning PE, Tibshirani R, Borresen-Dale AL, Pollack JR. Genes Chromosomes Cancer 2006 45(11):1033-40. Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors. Pollack JR, Sorlie T, Perou CM, Rees CA, Jeffrey SS, Lonning PE, Tibshirani R, Botstein D, Borresen-Dale AL, Brown PO. PNAS. 2002 99(20): 12963-8. Repeated observation of breast tumor subtypes in independent gene expression data sets. Sorlie T, Tibshirani R, Parker J, Hastie T, Marron JS< Nodel A, Deng S, Johnsen H, Pesich R, Geisler S, Demeter J, Perou CM, Lonning PE, Brown PO, Borresen-Dale AL, Botstein D. PNAS. 2003 100:8418-23. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Sorlie T, Perou CM, Tibshirani R, Aas T, Geisler S, Johnsen H, Hastie T, Eisen MB, va de Rijn M, Jeffrey SS, Thorsen T, Quist H, Matese JC, Brown PO, Botstein D, Lonning PE, Borresen-Dale AL. PNAS (2001) 98:10869-74. Geisler S, Borresen-Dale AL, Johnsen H, Aas T, Geisler J, Akslen LA, Anker G, Lonning PE Clin Cancer Res. (2003) 9:5582-8. pubmedId: 16897746 SampleType: Tumor Tissue numSamples: 127 tissueType: Breast Institution: Stanford University releaseDate: 1367798400000 Investigator: Pollack Internal_Name: Pollack_breast release_notes: Pollack Dataset: These were derived from 127 locally advanced (T3/T4 and/or N2) breast cancer tumors removed from patients enrolled in one of two trials and were therefore receiving either doxorubicin or fluorouracil-mitomycin based neoadjuvant chemotherapy. In addition to clinical phenotypes, gene expression and CNV data were available that were generated using Standford spotted cDNA arrays. However, all 3 data types are only available for 47 of the 127 samples included in this packet. syn4928 syn88662 syn4930