Revealing selection in cancer using the predicted functional impact of cancer mutations. Application to nomination of cancer drivers

Table 2 Percentage of silent, truncating and functional mutations affecting genes with one copy loss.

Cancer	silent mutation	truncating mutation	P-value	all missense mutations	Missense mutations selected by FIS
					FIS>2	FIS>2.5	FIS>3.0	FIS>3.5	P-val
breast	11.6	16.7	0	12.5	12.9	13.4	14.2	16.3	2E-06
lung	11.4	13.5	2E-05	11.7	12.1	12.4	12.5	12.5	0.009
colon	10.7	13.6	0.001	11.5	12.4	13.3	14.2	15.2	3E-04
kidney	6.1	14.3	0	6.5	11.3	12.1	11.4	10.9	2E-04
brain	12.5	15.3	9E-06	13.9	14.1	14.6	15.0	14.6	0.009
overian	20.5	30	0	22.3	23.6	26.2	26.0	29.0	0

Predicted high-scoring functional missense mutations tend to be selected in genes with one copy loss practically as frequent as truncating mutations.

ISSN: 1471-2164