Users have asked us:
How is the isTCGAhotspot column in the CCLE_mutations.csv calculated.
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The list of hotspot mutations that we use was generated using the TCGA data as part of the CCLE2 paper. If there are at least 3 samples present in TCGA with that specific hotspot mutation we mark it in isTCGAhotspot.
UPDATE (MORE INFO):
These are all mutations that occur in ≥3 TCGA patients (from the MC3 callset), regardless of whether they are actually driver hotspots or just passenger hotspots. These events had rather stringent panel-of-normals and ExAC filtering applied to them, so they are unlikely to be recurrent technical artifacts. The mutations were calculated using a pan-cancer sample set.
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