Breast Cell Line Copy Number Segmented (Gray Lab)

{"owner":"su2c","longTitle":"Breast Cell Line Copy Number (gene level, Gray Lab)","cohort":"Breast Cancer Cell Lines (Heiser 2012)","url":"http://www.ncbi.nlm.nih.gov/pubmed/22003129","dataSubType":"copy number","citation":"Proc Natl Acad Sci U S A. 2012 Feb 21;109(8):2724-9.","label":"Breast Cell Line Copy Number (gene level)","articletitle":"Subtype and pathway specific responses to anticancer compounds in breast cancer","tags":["cell lines","cancer"],"anatomical_origin":["Breast"],"name":"grayBreastCellLines_public/grayBreastCellLineSNPSeg_hugo","dataproducer":"Heiser LM, Sadanandam A, Kuo WL, Benz SC, Goldstein TC et. al.","wrangling_procedure":"CBS Segmented copy number SNP6 dataset is provided by the authors. Data in converted into HUGO gene space at UCSC.","sample_type":["cell line"],"type":"genomicMatrix","version":"2012-02-24","primary_disease":"breast cancer","pmid":22003129,"description":"The dataset shows the gene-level copy number profile of a collection of breast cancer cell lines from the Gray Lab. GI50 to 77 therapeutic compounds as well as ER, HER2 and other phenotypic information is shown as the clinical data.\n\nGenomic copy number was assessed using the Affymetrix Genome-Wide Human SNP Array 6.0 analysis platform. Arrays were analyzed using aroma.affymetrix(http://aroma-project.org), data were normalized and DNA copy number ratios at each locus were estimated relative to a set of 20 normal sample arrays.  Data were segmented using circular binary segmentation (CBS) from the bioconductor package DNAcopy. Raw SNP6 data is available in the European Genotype Archive (EGAS00000000059), and is published in conjunction with Neve et al Cancer Cell 2006 (PMID:17157791)."}

Breast Cell Line Copy Number (gene level, Gray Lab)

{"cohort":"Breast Cancer Cell Lines (Heiser 2012)","url":"http://www.ncbi.nlm.nih.gov/pubmed/22003129","dataSubType":"phenotype","label":"Phenotypes","tags":["cancer"],"name":"grayBreastCellLines_public/grayBreastCellLines_public_clinicalMatrix","clinicalfeature":"grayBreastCellLines_public/grayBreastCellLines_public_clinicalFeature","type":"clinicalMatrix","wrangler":"Kyle Ellrott","version":"2012-02-24"}