TCGA stomach adenocarcinoma (STAD) somatic mutation (broad automated)

TCGA stomach adenocarcinoma (STAD) gene expression by RNAseq (polyA+ IlluminaGA BC)

TCGA stomach adenocarcinoma (STAD) gene expression by RNAseq (polyA+ IlluminaHiSeq percentile UNC)

{"cgdataversion":1,"owner":"TCGA","longTitle":"TCGA stomach adenocarcinoma (STAD) miRNA mature strand expression by RNAseq (IlluminaGA)","cohort":"TCGA Stomach Cancer (STAD)","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/stad/cgcc/bcgsc.ca/illuminaga_mirnaseq/mirnaseq/","dataSubType":"miRNA mature strand expression RNAseq","security":"public","label":"IlluminaGA","tags":["cancer","gastric cancer"],"path":"data/public/TCGA/STAD/miRNA_GA_gene","anatomical_origin":["Stomach"],"name":"TCGA.STAD.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":"stomach adenocarcinoma","platform":"IlluminaGA_miRNASeq","colnormalization":true}

TCGA stomach adenocarcinoma (STAD) miRNA mature strand expression by RNAseq (IlluminaGA)

TCGA stomach adenocarcinoma (STAD) gene expression by RNAseq (ployA+ IlluminaHiSeq), pancan normalized

TCGA stomach adenocarcinoma (STAD) gene expression by RNAseq (polyA+ IlluminaHiSeq UNC)

{"start_index":1,"owner":"TCGA","longTitle":"TCGA stomach adenocarcinoma (STAD) somatic mutation (bcm automated)","cohort":"TCGA Stomach Cancer (STAD)","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/stad/gsc/hgsc.bcm.edu/illuminaga_dnaseq_automated/mutations/","dataSubType":"somatic mutation (SNPs and small INDELs)","security":"public","label":"bcm automated","method":"Baylor pipeline","tags":["cancer","gastric cancer"],"path":"data/public/TCGA/STAD/mutation_bcm","anatomical_origin":["Stomach"],"name":"TCGA.STAD.sampleMap/mutation_bcm","dataproducer":"Baylor College of Medicine Human Genome Sequencing Center","wrangling_procedure":"Download .maf file from TCGA DCC, removed any calls from WGS samples, processed into UCSC Xena mutation format, stored in the UCSC Xena repository","sample_type":["tumor"],"assembly":"hg19","redistribution":true,"domain":"TCGA","type":"mutationVector","wrangler":"TCGAscript maf processed on 2017-09-08","version":"2017-09-08","gdata_tags":["Baylor College of Medicine Human Genome Sequencing Center"],"primary_disease":"stomach adenocarcinoma","platform":"IlluminaGA","description":"TCGA stomach adenocarcinoma (STAD) somatic mutation data. Sequencing data are generated on a IlluminaGA system. The calls are generated at Baylor College of Medicine Human Genome Sequencing Center using the Baylor pipeline method.","wholegenome":true}