MutaCYP: Classification of missense mutations in human cytochromes P450

BMC Medical Genomics

Table 4 Performance of the evaluated methods on the training (TS270) and control (CS30) sets

Dataset	Method^a	Confusion scores^b				Correlation,r
Dataset	Method^a	B-B	B-D	D-B	D-D	PolyPhen-2 HumVar	PolyPhen-2 HumDiv	SIFT
TS270	MutaCYP	55	18	13	184	0.69	0.67	0.58
	PolyPhen-2 HumVar	56	17	26	171		0.96	0.66
	PolyPhen-2 HumDiv	48	25	19	178			0.67
	SIFT	50	18	31	108
CS30	MutaCYP	1	0	0	29	0.38	0.19	0.12
	PolyPhen-2 HumVar	1	0	3	26		0.94	0.58
	PolyPhen-2 HumDiv	0	1	1	28			0.67
	SIFT	-	-	5	16

^aSIFT predictions miss 63 mutations in TS270 (58 deleterious and 5 benign) and 9 mutations in CS30 (8 deleterious and 1 benign).
^bConfusion scores notation: B-B – the number of benign mutations predicted as benign; B-D – benign as deleterious, D-D – deleterious as deleterious; D-B – deleterious as benign.
Confusion scores are computed for binary classification. Pearson correlation coefficient is computed for real valued predictions.

ISSN: 1755-8794