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Significantly mutated genes (SMGs) were defined as the somatic mutations with higher mutated frequency than background mutation rate.

DOI: http://dx.doi.org/10.7554/eLife.02482.008 A high frequency of SETD2 mutations was recently disclosed in several cancers, of which clear cell renal cell carcinoma (ccRCC) shows the highest SETD2 mutation rate (Dalgliesh et al., 2010; Varela et al., 2011).

Mutation rate: mutations per cell per generation.

Lynch, M. Evolution of the mutation rate.

(b) Region with increased maternal mutation rate on chromosome 9 (chr9: 0-10,000,000).

The mutation rate was set to 2 × 10−8.

Genomic factors that affect mutation rate in non-coding elements.

fg=3.9 A gene-specific background mutation rate estimated by MutSigCV.

We used a grass-specific mutation rate of 1 × 10−8.

(c) Region with increased maternal mutation rate on chromosome 9 (chr9: 0-10,000,000).

(d) Region with increased maternal mutation rate on chromosome 2 (chr2: 0-10,000,000).