TCGA lung cancer (LUNG) gene-level non-silent somatic mutation (pancan awg)

{"cohort":"TCGA Lung Cancer (LUNG)","clinicalfeature":"TCGA.LUNG.sampleMap/LUNG_clinicalFeature","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/lusc/bcr/, https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/luad/bcr/","label":"Phenotypes","version":"2016-04-27","dataSubType":"phenotype","type":"clinicalMatrix","name":"TCGA.LUNG.sampleMap/LUNG_clinicalMatrix"}

{"owner":"TCGA","longTitle":"TCGA lung cancer (LUNG) copy number gistic2 thresholded estimate","cohort":"TCGA Lung Cancer (LUNG)","min":-2,"dataSubType":"copy number (gene-level)","security":"public","label":"gistic2 thresholded","max":2,"tags":["cancer","non-small cell lung cancer"],"path":"data/public/TCGA/LUNG/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes","anatomical_origin":["Lung"],"name":"TCGA.LUNG.sampleMap/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes","sample_type":["tumor"],"redistribution":true,"domain":"TCGA","type":"genomicMatrix","version":"2017-09-08","unit":"-2,-1,0,1,2: 2 copy del, 1 copy del, no change, amplification, high-amplification","primary_disease":"lung cancer","description":"The dataset is combined from TCGA lung squamous cell carcinoma and lung adenocarcinoma datasets. TCGA lung cancer (LUNG) thresholded gene-level copy number variation (CNV) estimated using the GISTIC2 method.<br><br> Copy number profile was measured experimentally using whole genome microarray at a TCGA genome characterization center. Subsequently, GISTIC2 method was applied using the TCGA FIREHOSE pipeline to produce gene-level copy number estimates. GISTIC2 further thresholded the estimated values to -2,-1,0,1,2, representing homozygous deletion, single copy deletion, diploid normal copy, low-level copy number amplification, or high-level copy number amplification. Genes are mapped onto the human genome coordinates using UCSC xena HUGO probeMap. Reference to GISTIC2 method PMID:21527027.<br><br>"}