TCGA acute myeloid leukemia (LAML) exon expression by RNAseq (polyA+ IlluminaHiSeq)

{"assembly":"hg18","dbxref":"ucscGenesHg18Probe","name":"paradigmPathwayV1.probeMap","notes":"paradigm pathway v1: old NCI pathway interaction database parsed","type":"probeMap","version":"2012-10-16"}

{"cgdataversion":1,"owner":"TCGA","longTitle":"TCGA acute myeloid leukemia (LAML) PARADIGM inference activity (RNAseq)","cohort":"TCGA Acute Myeloid Leukemia (LAML)","url":"http://gdac.broadinstitute.org/runs/analyses__2016_01_28/data/LAML/20160128/","probeMap":"paradigmPathwayV1.probeMap","dataSubType":"PARADIGM pathway activity","security":"public","label":"expression","tags":["cancer"],"path":"data/public/TCGA/LAML/Pathway_Paradigm_RNASeq","anatomical_origin":["White blood cell"],"name":"TCGA.LAML.sampleMap/Pathway_Paradigm_RNASeq","dataproducer":"TCGA FIREHOSE pipeline","wrangling_procedure":"FIREHOSE data download from TCGA DCC, processed at UCSC into cgData repository","sample_type":["tumor"],"redistribution":true,"domain":"TCGA","groupTitle":"TCGA acute myeloid leukemia","type":"genomicMatrix","wrangler":"cgData TCGAscript Pathway_Paradigm processed on 2017-09-08","version":"2017-09-08","primary_disease":"acute myeloid leukemia","description":"Broad FireHose automated run results of TCGA acute myeloid leukemia (LAML) gene activity level inferred using the PARADIGM method on RNAseq data alone.<br><br>PARADIGM (PMID 20529912) is pathway analysis method to infer tumor sample-specific genetic activities by incorporating curated pathway interactions as well as integrating diverse types of genomic data. The pathways used in this analysis are from <a href=\"http://pid.nci.nih.gov/\" target=\"_blank\"><u>NCI pathway interaction database</u></a>.<br><br>"}

TCGA acute myeloid leukemia (LAML) PARADIGM inference activity (RNAseq)

{"start_index":1,"owner":"TCGA","longTitle":"TCGA acute myeloid leukemia (LAML) somatic mutation (wustl)","cohort":"TCGA Acute Myeloid Leukemia (LAML)","url":"https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/laml/gsc/genome.wustl.edu/illuminaga_dnaseq/mutations/","dataSubType":"somatic mutation (SNPs and small INDELs)","security":"public","label":"wustl","method":"WashU pipeline","tags":["cancer"],"path":"data/public/TCGA/LAML/mutation_wustl","anatomical_origin":["White blood cell"],"name":"TCGA.LAML.sampleMap/mutation_wustl","dataproducer":"Genome Institute at Washington University 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":"hg18","redistribution":true,"domain":"TCGA","type":"mutationVector","wrangler":"TCGAscript maf processed on 2017-10-16","version":"2017-10-16","target":"whole exome","gdata_tags":["Genome Institute at Washington University Sequencing Center"],"primary_disease":"acute myeloid leukemia","platform":"IlluminaGA","description":"TCGA acute myeloid leukemia (LAML) somatic mutation data. Sequencing data are generated on a IlluminaGA system. The calls are generated at Genome Institute at Washington University Sequencing Center using the WashU pipeline method."}