{"name":"TCGA-STAD/Xena_Matrices/TCGA-STAD.survival.tsv","cohort":"GDC TCGA Stomach Cancer (STAD)","url":"https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-90, https://api.gdc.cancer.gov/data/","dataSubType":"phenotype","dataproducer":"Genomic Data Commons","label":"survival data","type":"clinicalMatrix","wrangler":"Xena GDC ETL script","version":"10-25-2017"}

{"start_index":1,"cohort":"GDC TCGA Stomach Cancer (STAD)","url":"https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-100, https://api.gdc.cancer.gov/data/e03d57b9-66dd-4dac-aa8e-597ed4a4559d","dataSubType":"somatic mutation (SNPs and small INDELs)","label":"VarScan2 Variant Aggregation and Masking","name":"TCGA-STAD/Xena_Matrices/TCGA-STAD.varscan2_snv.tsv","dataproducer":"Genomic Data Commons","wrangling_procedure":"Data from different samples is combined into mutationVector; \"Hugo_Symbol\", \"Chromosome\", \"Start_Position\", \"End_Position\", \"Reference_Allele\", \"Tumor_Seq_Allele2\", \"Tumor_Sample_Barcode\", \"HGVSp_Short\" and \"Consequence\" data are renamed accordingly and presented; \"dna_vaf\" data is added and is calculated by \"t_alt_count\"/\"t_depth\".","assembly":"hg38","type":"mutationVector","wrangler":"Xena GDC ETL script","version":"02-04-2018","platform":"Illumina"}

{"name":"TCGA-TGCT/Xena_Matrices/TCGA-TGCT.GDC_phenotype.tsv","cohort":"GDC TCGA Testicular Cancer (TGCT)","url":"https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-90, https://api.gdc.cancer.gov/data/","dataSubType":"phenotype","dataproducer":"Genomic Data Commons","label":"Phenotype","type":"clinicalMatrix","wrangler":"Xena GDC ETL script","version":"11-27-2017"}

{"cohort":"GDC TCGA Testicular Cancer (TGCT)","url":"https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-80, https://api.gdc.cancer.gov/data/","probeMap":"probeMaps/gencode.v22.annotation.gene.probeMap","dataSubType":"gene expression RNAseq","label":"HTSeq - Counts","name":"TCGA-TGCT/Xena_Matrices/TCGA-TGCT.htseq_counts.tsv","dataproducer":"Genomic Data Commons","wrangling_procedure":"Data from the same sample but from different vials/portions/analytes/aliquotes is averaged; data from different samples is combined into genomicMatrix; all data is then log2(x+1) transformed.","type":"genomicMatrix","wrangler":"Xena GDC ETL script","version":"09-15-2017","unit":"log2(count+1)","platform":"Illumina","colnormalization":true}