TAP Hunter: a SVM-based system for predicting TAP ligands using local description of amino acid sequence

Immunome Research

Table 1 Performance evaluation of SVM models using different peptide localities (selected outputs are shown)

No of a.a.	Model No.	a.a. positions used in modeling	ACC		AROC
			5-fold CV	Independent testing	5-fold CV	Independent testing
	1	2, 3	0.80	0.76	0.80	0.75
2	2	2, 9	0.76	0.77	0.80	0.83
	3	3, 9	0.79	0.78	0.81	0.86
	4	1, 2, 3	0.79	0.77	0.83	0.78
3	5	1, 2, 9	0.82	0.82	0.88	0.86
	6	1, 3, 9	0.80	0.77	0.84	0.85
	7	2, 3, 9	0.82	0.83	0.87	0.88
	8	1, 2, 3, 7	0.79	0.73	0.84	0.76
	9	1, 2, 3, 8	0.79	0.79	0.82	0.77
	10	1, 2, 3, 9	0.84	0.82	0.88	0.88
	11	1, 2, 7, 9	0.81	0.75	0.87	0.83
4	12	1, 2, 8, 9	0.80	0.78	0.86	0.86
	13	1, 3, 7, 9	0.81	0.79	0.85	0.86
	14	1, 3, 8, 9	0.82	0.81	0.83	0.86
	15	2, 3, 7, 9	0.83	0.76	0.89	0.83
	16	2, 3, 8, 9	0.78	0.82	0.85	0.88
	17	1, 2, 3, 7, 8	0.79	0.76	0.84	0.74
	18	1, 2, 3, 8, 9	0.81	0.82	0.86	0.89
5	19	1, 2, 7, 8, 9	0.82	0.76	0.87	0.83
	20	1, 2, 3, 7, 9	0.82	0.77	0.88	0.86
	21	1, 3, 7, 8, 9	0.80	0.80	0.85	0.83
	22	2, 3, 7, 8, 9	0.82	0.79	0.86	0.86
	23	1, 2, 3, 4, 5, 6	0.76	0.8	0.83	0.80
6	24	1, 2, 3, 7, 8, 9	0.82	0.79	0.85	0.86
	25	4, 5, 6, 7, 8, 9	0.78	0.69	0.80	0.59
	26	1, 2, 3, 4, 7, 8, 9	0.80	0.75	0.85	0.84
7	27	1, 2, 3, 5, 7, 8, 9	0.81	0.76	0.85	0.86
	28	1, 2, 3, 6, 7, 8, 9	0.81	0.77	0.86	0.84
	29	1, 2, 3, 5, 6, 7, 8, 9	0.81	0.82	0.86	0.85
8	30	1, 2, 3, 4, 6, 7, 8, 9	0.80	0.80	0.85	0.84
	31	1, 2, 3, 4, 5, 7, 8, 9	0.78	0.79	0.83	0.85
9	32	1, 2, 3, 4, 5, 6, 7, 8, 9	0.79	0.78	0.84	0.83