{"cohort":"MET500 (expression centric)","probeMap":"probeMap/gencode.v23.annotation.gene.probemap","dataSubType":"gene expression","citation":"Nature. 2017 Aug 17;548(7667):297-303. doi: 10.1038/nature23306.","label":"RNAseq (fpkm)","articletitle":"Integrative clinical genomics of metastatic cancer.","name":"MET500/geneExpression/M.mx.txt","dataproducer":"Robinson DR, Wu YM, ... , Cie\u015blik M, Chinnaiyan AM","wrangling_procedure":"download fpkm data matrix provided by manuscript author","type":"genomicMatrix","version":"2018-12-19","unit":"log2(fpkm+0.001)","colnormalization":true,"pmid":28783718,"description":"The gene expression data is generated using two platforms - capture and polyA RNA-seq. The provided FPKMs matrix has been adjusted for systematic differences between them (capture is changed to look like polyA). The data was obtained by aligning to GRCh38 using STAR and counting reads using featureCounts and the Gencode v.23 reference transcriptome. Only protein coding genes are included because the capture RNA-seq assay is restricted to proteins. For more information please see <a href=\"https://www.nature.com/articles/nature23306#methods\"> method section of the publication</a>."}

{"cohort":"NCI-60","url":"https://discover.nci.nih.gov/cellminer/, https://www.ncbi.nlm.nih.gov/pubmed/?term=24670534","dataSubType":"Copy number","citation":"PLoS One. 2014 Mar 26;9(3):e92047","label":"DNA: Combined aCGH gene summary","articletitle":"High resolution copy number variation data in the NCI-60 cancer cell lines from whole genome microarrays accessible through CellMiner.","name":"NCI60/DNA_Combined_aCGH_gene_summary.txt","dataproducer":"Varma S, Pommier Y, Sunshine M, Weinstein JN, Reinhold WC","type":"genomicMatrix","version":"2018-09-06","unit":"log2(tumor/normal)","pmid":24670534,"description":"Probe intensities combined from four platforms: Agilent Human Genome CGH Microarray 44A, Nimblegen HG19 CGH 385K WG Tiling v2.0, Affymetrix GeneChip Human Mapping 500k Array Set and Illumina Human1Mv1_C Beadchip"}