Study entity

Overview

This report shows general information about PCAWG cohorts and allows to perform several cohort-based analyses. The term study is used to refer to cohorts.

Driver genes

We have two types of driver reports: the integrated cohort driver calls produced by the driver group, and the sample level driver calls produced by the patient-centric analysis group.

For cohort level donors there are driver calls for CDS, 3’UTR, 5’UTR, promoter core, and enhancers (enhancers are regions not genes). These were selected by considering the 0.1 q-value (BH FDR correction). These are semi-final results.

Integrated driver calls are represented under the driver incidence where the donors where independently examined for alterations over the driver regions. The annotations used here could be slightly different than those used by the driver call, in particular promoter core regions. These are also represented in the ‘Cohort’ driver network.

Sample level drivers are shown in the ‘Sample’ driver network. These results are temporary while the final set is produced based on the final integrated calls.

Actions

There are a number of actions associated with each cohort that extend the information with further analyses: functional enrichment, driver prediction, summary tables, reports for genes and list of genes, etc.

You may access these actions using the controller on the bottom part of the report. Some of these actions accept parameters. Remember that actions, like any other report, are computed on-demand. Please be patient.