{"cohort":"PCAWG (specimen centric)","url":"https://www.synapse.org/#!Synapse:syn10333001, https://www.synapse.org/#!Synapse:syn10332949, https://www.synapse.org/#!Synapse:syn3354819","probeMap":"expressedPromoterCoordinates.probeMap","dataSubType":"alternative promoter activity","label":"cancer type specific promoter outlier","name":"promoterCentricTable_0.2_1.0.sp","wrangling_procedure":"Promoter to gene mapping are based on : https://www.synapse.org/#!Synapse:syn10332989. Data is mapped to specimen ids. 67989 promoters do not contribute to any transcription in any specimens. 45087 promoters contribute to transcription in at least one sample. All promoter data are kept in the matrix data file. Only the 45087 promoters with any activities are included in the promoter to gene mapping.","type":"genomicMatrix","version":"2017-09-26","unit":"-1 (low expression), 0 (normal), 1 (high expression)","description":"The outlier states: -1 (low expression), 0 (normal), 1 (high expression).<br><br>Promoter outliers are calculated based on relative activity for each cancer type specifically. For each promoter, the distribution of the relative expression has been examined. A z-score of 2 has been used as cut-off for outlier detection. The outliers detected are then further filtered by minimum expression filters and relative expression change filters. The outlier state values are -1 (low expression), 0 (normal), 1 (high expression)."}

{"cohort":"PCAWG (specimen centric)","url":"https://www.synapse.org/#!Synapse:syn10333030, https://www.synapse.org/#!Synapse:syn10332949, https://www.synapse.org/#!Synapse:syn3354819","probeMap":"expressedPromoterCoordinates.probeMap","dataSubType":"alternative promoter activity","label":"raw promoter activity","name":"rawPromoterActivity.sp","wrangling_procedure":"Promoter to gene mapping are based on : https://www.synapse.org/#!Synapse:syn10332989. Data is mapped to specimen ids.  67989 promoters do not contribute to any transcription in any specimens. 45087 promoters contribute to transcription in at least one sample. All promoter data are kept in the matrix data file. Only the 45087 promoters with any activities are included in the promoter to gene mapping.","type":"genomicMatrix","version":"2017-09-26","unit":"raw promoter activity","description":"A gene has multiple promoters, each drives transcription of a different set of isoforms. The dataset describes their activity driving transcription. Promoter is defined as transcription start site. Raw promoter activities are calculated as the sum of the expression of the transcripts belonging to that promoter."}