Validation status of individual mutations within the targeted regions of the deep-sequencing data (76 genes), among those detected from 16 LUSC whole exome-seq pairs using four callers. Mutations that were detected by at least one caller (in total, 138) are ordered by the variant allele fraction in the tumor exome-seq data. The validation status (‘somatic’ or ‘non-somatic’) was determined based on the deep-sequencing data as described in Table 1. A mutation is marked as ‘strand bias’ (red circle) when more than 95% or less than 5% of the reads carrying the variant allele are on the forward strand in the tumor exome-seq data. Mutations that were detected by a single caller only (e.g., Caller B only) or missed by a single caller only (e.g., All but Caller B) are indicated with upside down triangle or filled diamond, respectively.
Kim and Speed BMC Bioinformatics 2013 14:189 doi:10.1186/1471-2105-14-189