Prediction of peptides binding to MHC class I and II alleles by temporal motif mining

BMC Bioinformatics

Table 2 Results of MHC-PPM in class II predictions in Wang2008 dataset [19].

Allele	#	RANKPEP	ARB	PROPRED	SMM-align	MHCMIR	MHC-PPM
HLA-DRB1*0101	3882	0.700	0.760	0.740	0.770	0.810	0.878
HLA-DRB1*0301	502	0.670	0.660	0.650	0.690	0.640	0.712
HLA-DRB1*0401	512	0.630	0.670	0.690	0.680	0.730	0.666
HLA-DRB1*0404	449	0.660	0.720	0.790	0.750	0.730	0.792
HLA-DRB1*0405	457	0.620	0.670	0.750	0.690	0.730	0.734
HLA-DRB1*0701	505	0.580	0.690	0.780	0.780	0.830	0.893
HLA-DRB1*0802	245	-	0.740	0.770	0.750	0.740	0.827
HLA-DRB1*0901	412	0.610	0.620	-	0.660	0.620	0.666
HLA-DRB1*1101	520	0.700	0.730	0.800	0.810	0.810	0.817
HLA-DRB1*1302	289	0.520	0.790	0.580	0.690	0.720	0.679
HLA-DRB1*1501	520	0.620	0.700	0.720	0.740	0.730	0.759
HLA-DRB3*0101	420	-	0.590	-	0.680	-	0.712
HLA-DRB4*0101	245	0.650	0.740	-	0.710	0.760	0.829
HLA-DRB5*0101	520	0.730	0.700	0.790	0.750	0.710	0.845
H-2 IAb	500	0.740	0.800	-	0.750	0.690	0.786
H-2 IEd	39	0.830	-	-	-	-	0.867
Average		0.661	0.705	0.733	0.727	0.732	0.779
Weighted Avg		0.671	0.722	0.738	0.743	0.760	0.780

The (#) column gives the total number of peptides for the given allele. The best-performing method for each allele is underlined.

ISSN: 1471-2105