MHC2MIL: a novel multiple instance learning based method for MHC-II peptide binding prediction by considering peptide flanking region and residue positions

Table 5 Performance of adding 2,3,5,8 positions respectively to MHC2MIL(fl+kp) on DR. For each allele, the largest value is displayed in boldface.

allele	MHC2MIL(fl)	MHC2MIL(fl+kp)	MHC2MIL(+2)	MHC2MIL(+3)	MHC2MIL(+5)	MHC2MIL(+8)
HLA-DRB1_0101	0.786	0.787	0.792	0.787	0.785	0.785
HLA-DRB1_0301	0.808	0.803	0.809	0.807	0.799	0.806
HLA-DRB1_0401	0.741	0.732	0.736	0.738	0.727	0.734
HLA-DRB1_0404	0.791	0.782	0.786	0.783	0.773	0.775
HLA-DRB1_0405	0.792	0.785	0.792	0.786	0.790	0.785
HLA-DRB1_0701	0.819	0.823	0.825	0.823	0.823	0.821
HLA-DRB1_0802	0.712	0.716	0.718	0.715	0.720	0.721
HLA-DRB1_0901	0.733	0.735	0.736	0.734	0.731	0.728
HLA-DRB1_1101	0.834	0.838	0.843	0.842	0.838	0.837
HLA-DRB1_1302	0.745	0.734	0.746	0.744	0.733	0.735
HLA-DRB1_1501	0.765	0.763	0.770	0.766	0.764	0.759
HLA-DRB3_0101	0.756	0.757	0.762	0.755	0.750	0.749
HLA-DRB4_0101	0.787	0.792	0.797	0.791	0.790	0.788
HLA-DRB5_0101	0.803	0.808	0.811	0.806	0.799	0.805
average AUC	0.777	0.775	0.780	0.777	0.773	0.773

ISSN: 1471-2164