{"start_index":1,"cohort":"GDC TCGA Uterine Carcinosarcoma (UCS)","url":"https://docs.gdc.cancer.gov/Data/Release_Notes/Data_Release_Notes/#data-release-100, https://api.gdc.cancer.gov/data/a35f9f72-e4da-4d93-ad40-11cbd417b037","dataSubType":"somatic mutation (SNPs and small INDELs)","label":"VarScan2 Variant Aggregation and Masking","name":"TCGA-UCS/Xena_Matrices/TCGA-UCS.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":"exp_seq_donor_US_log2","type":"genomicMatrix","dataSubType":"gene expression RNAseq","unit":"log2(icgc_normalized_read_count + 1e-8)","label":"US projects","cohort":"ICGC (donor centric)","colnormalization":true,"url":"https://dcc.icgc.org/releases/release_21/Projects"}

{"cohort":"ICGC (donor centric)","url":"https://dcc.icgc.org/releases/release_22/Projects","dataSubType":"somatic mutation (SNPs and small INDELs)","label":"coding mutations, all proejcts","name":"SNV.donor.codingMutation-allProjects","assembly":"hg19","mutationsubtype":"coding","type":"mutationVector","version":"2016-11-28","description":"Coding simple somatic mutations from all projects."}

{"cohort":"ICGC (donor centric)","url":"https://dcc.icgc.org/releases/release_23/Projects","dataSubType":"copy number segments","label":"SNP6","name":"CNV.SNP6.donor.xena","assembly":"hg19","type":"genomicSegment","version":"2016-12-11","unit":"log(tumor/normal)","description":"Copy number assayed by SNP6 array from all projects."}

{"name":"donor.all_projects.survival.xena","label":"overall survival","type":"clinicalMatrix","dataSubType":"phenotype","cohort":"ICGC (donor centric)","url":"https://dcc.icgc.org/api/v1/download?fn=/release_22/Summary/donor.all_projects.tsv.gz","wrangling_procedure":"combine days_to_death and days_to_last_followup to dereive _TIME_TO_EVENT, use vital status as _EVENT","clinicalfeature":"donor.all_projects.overallSurvival_clinFeature"}