TCGA breast invasive carcinoma (BRCA) gene expression by RNAseq (polyA+ IlluminaHiSeq percentile)

{"cgdataversion":1,"owner":"TCGA","longTitle":"TCGA breast invasive carcinoma (BRCA) miRNA mature strand expression by RNAseq (IlluminaGA)","cohort":"TCGA Breast Cancer (BRCA)","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/brca/cgcc/bcgsc.ca/illuminaga_mirnaseq/mirnaseq/","dataSubType":"miRNA mature strand expression RNAseq","security":"public","label":"IlluminaGA","tags":["cancer"],"path":"data/public/TCGA/BRCA/miRNA_GA_gene","anatomical_origin":["Breast"],"name":"TCGA.BRCA.sampleMap/miRNA_GA_gene","dataproducer":"British Columbia Cancer Agency TCGA genome characterization center","wrangling_procedure":"Level_3 Data (file names: *.isoform.quantification.txt) download from TCGA DCC, for each sample, all isoform expression for the same miRNA mature strand are added together, log2(total_RPM +1) transformed, and deposited at UCSC into Xena repository.","sample_type":["tumor"],"redistribution":true,"domain":"TCGA","type":"genomicMatrix","wrangler":"cgData TCGAscript miRNAseq processed on 2017-09-08","version":"2017-09-08","gdata_tags":["transcription","miRNA"],"unit":"log2(RPM+1)","primary_disease":"breast invasive carcinoma","platform":"IlluminaGA_miRNASeq","colnormalization":true}

TCGA breast invasive carcinoma (BRCA) miRNA mature strand expression by RNAseq (IlluminaGA)

TCGA breast invasive carcinoma (BRCA) gene expression by RNAseq (ployA+ IlluminaHiSeq), pancan normalized

TCGA breast invasive carcinoma (BRCA) gene expression by RNAseq (polyA+ IlluminaHiSeq)

{"longTitle":"TCGA breast invasive carcinoma (BRCA) gene-level nonsilent somatic mutation (wustl_hiseq automated)","cohort":"TCGA Breast Cancer (BRCA)","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/brca/gsc/genome.wustl.edu/illuminahiseq_dnaseq_automated/mutations/","probeMap":"probeMap/hugo_gencode_good_hg19_V24lift37_probemap","dataSubType":"somatic non-silent mutation (gene-level)","security":"public","label":"wustl_hiseq automated","method":"WashU pipeline","tags":["cancer"],"path":"data/public/TCGA/BRCA/mutation_wustl_hiseq_gene","anatomical_origin":["Breast"],"name":"TCGA.BRCA.sampleMap/mutation_wustl_hiseq_gene","dataproducer":"Genome Institute at Washington University Sequencing Center","wrangling_procedure":"Download .maf file from TCGA DCC, processed into gene by sample matrix at UCSC, stored in the UCSC Xena repository","sample_type":["tumor"],"redistribution":true,"type":"genomicMatrix","wrangler":"xena TCGAscript maf processed on 2018-01-10","version":"2018-01-10","gdata_tags":["Genome Institute at Washington University Sequencing Center"],"unit":"binary non-silent mutation","primary_disease":"breast invasive carcinoma","platform":"IlluminaHiSeq","description":"TCGA breast invasive carcinoma (BRCA) somatic mutation data.  Sequencing data are generated on a IlluminaHiSeq system. The calls are generated at Genome Institute at Washington University Sequencing Center using the WashU pipeline method. <br><br> Red (=1) indicates that a non-silent somatic mutation (nonsense, missense, frame-shif indels, splice site mutations, stop codon readthroughs, change of start codon, inframe indels) was identified in the protein coding region of a gene, or any mutation identified in a non-coding gene. White (=0) indicates that none of the above mutation calls were made in this gene for the specific sample.<br><br>"}