{"cohort":"PCAWG (specimen centric)","url":"https://www.synapse.org/#!Synapse:syn7221157, https://www.synapse.org/#!Synapse:syn5383480, https://www.synapse.org/#!Synapse:syn2364711","probeMap":"gencode.annotation.gene.probemap","dataSubType":"gene fusion RNAseq","label":"gene-level fusion","name":"pcawg3_fusions_PKU_EBI.gene_centric.sp.xena","type":"genomicMatrix","version":"2017-02-22","unit":"binary fusion call, 1 fusion, 0 otherwise","description":"PCAWG-3 gene fusion calls. Binary gene-level fusion call, 1 fusion, 0 otherwise. Merged calls from EBI-EMBL and PKU groups"}

{"cohort":"PCAWG (specimen centric)","url":"https://www.synapse.org/#!Synapse:syn7596712, https://www.synapse.org/#!Synapse:syn5964535","dataSubType":"structural somatic mutation (structural variant)","label":"merge set v 1.6","name":"pcawg_consensus_1.6.161116.somatic_svs.xena.sp","wrangling_procedure":"Vcf files (.somatic_svs.tar.gz) are downloaded from Synapse, wrangled into UCSC Xena format for structrual variant dataset, breakpoint genes are assigned by the Xena team if the breakpoint (svtype=BND in the vcf file) overlaps the gene region plus 2kb upstream of Tx start. Aliquot_id (uuid) is mapped to ICGC specimen id in the dataset.","assembly":"hg19","customcolor":{"description":{"url":"https://docs.google.com/spreadsheets/d/17zFEZIs4y1oD_gjYLXZGlFOpxxNmqpMr-UKIG-X1nMk/edit"},"SV":{"9":"#DC85EE","3":"#F7F797","22":"#9E2800","4":"#7C749B","8":"#96D53D","14":"#336C80","21":"#E0BD8C","20":"#475ECC","19":"#F88B78","17":"#D4C5F2","Y":"#B6EBEA","15":"#F7CA44","7":"#DC8747","5":"#E85726","18":"#995493","12":"#78AAF1","13":"#D9C6CA","6":"#B395F8","1":"#DE47AB","X":"#F2BBD2","11":"#88DB68","2":"#72BE97","16":"#32C7C7","10":"#7D32B3"}},"type":"mutationVector","version":"2017-01-18","description":"<b>PCAWG6 Structural Variant merge set v 1.6.</b><br><br>Merge is based on SV calls from BRASS (Sanger), DELLY (EMBL-DKFZ), dRanger and SNOWMAN (BROAD). This dataset is the filtered somatic SV calls (.somatic_svs.tar.gz). Breakpoint gene assignment: gene region plus 2kb upstream of Tx start of the gene."}