TCGA brain lower grade glioma and glioblastoma multiforme (GBMLGG) PARADIGM inference activity (array mRNA + CNV)

{"owner":"TCGA","longTitle":"TCGA brain lower grade glioma and glioblastoma multiforme (GBMLGG) copy number gistic2 thresholded estimate","cohort":"TCGA lower grade glioma and glioblastoma (GBMLGG)","min":-2,"dataSubType":"copy number (gene-level)","security":"public","label":"gistic2 thresholded","max":2,"tags":["cancer","nervous system"],"path":"data/public/TCGA/GBMLGG/Gistic2_CopyNumber_Gistic2_all_thresholded.by_genes","anatomical_origin":["Brian"],"name":"TCGA.GBMLGG.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":"glioblastoma multiforme and brain lower grade glioma","description":"The dataset is combined from TCGA brain lower grade glioma and glioblastoma multiforme datasets. TCGA brain lower grade glioma and glioblastoma multiforme (GBMLGG) 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>"}

TCGA brain lower grade glioma and glioblastoma multiforme (GBMLGG) copy number gistic2 thresholded estimate

{"cohort":"TCGA lower grade glioma and glioblastoma (GBMLGG)","clinicalfeature":"TCGA.GBMLGG.sampleMap/GBMLGG_clinicalFeature","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/lgg/bcr/","label":"Phenotypes","version":"2016-04-27","dataSubType":"phenotype","type":"clinicalMatrix","name":"TCGA.GBMLGG.sampleMap/GBMLGG_clinicalMatrix"}