West Nile Virus Vaccine Design by T Cell Epitope Selection: In Silico Analysis of Conservation, Functional Cross-Reactivity with the Human Genome, and Population Coverage

Table 1

HLA-I binding profiles and population protection coverage calculated by EPISOPT and IEDB for the five main ethnic groups.

(a) EPISOPT

Peptide	HLA-I binding profile EPISOPT	PPC (%)
ITYTDVLRY	A0301 A1101 A6801 B1502 B1516 B1517 B2702 B2709 B5502 C0702	44.66
TLARGFPFV	A0201 A0202 A0203 A0204 A0205 A0206 A6802	34.52
SLFGGMSWI	A0201 A0202 A0206 B1508	27.58
KSYETEYPK	A1101 A3101 A3301 A6801	14.86
LTYRHKVVK	A0301 A1101 A3101 A3301 A6801 B1502	32.51
RVLSLIGLK	A0203 A0301 A1101 A3101	24.47
AVVVNPSVK	A0301 A1101	17.83
SYHDRRWCF	A2402 C0702	22.05
RYLVKTESW	B1513 B5701 B5702	2.48
MPNGLIAQF	B0702 B1502 B1508 B3501 B3801 B5301 B5401 B5702 B5801	35.45
GPIRFVLAL	A0203 A0214 B0702 B0801 B3501 B5301 B5401 C0304	44.48
AEVEEHRTV	A2902 B4002	7.11
WMDSTKATRY	—	0
KGDTTTGVY	B1516 B5702 B5801	2.13
VVEKQSGLY	A1101	4.70
QTDNQLAVF	A0207 B3801 B5702 B5801	3.71
ALRGLPIRY	A0201 A0203 A0301 B1517	27.34
TEVMTAVGL	A2902 B39011 B3909 B4002 B4402	12.41
MTTEDMLEVW	—	0
RPAADGKTV	B0702 B5101 B5102 B5103 B5401 B5502	18.59
ILRNPGYAL	A0202 A0206 A0214 B0702 B1502 C0304	29.62
RVLEMVEDW	B1513 B5701 B5702 B5801	5.79
RSLFGGMSW	B5701	1.93
RAWNSGYEW	B5801	1.59
HTTKGAALM	B1510	0
SVGGVFTSV	A0201 A0202 A0203 A0206	28.88
VLNETTNWL	A0201	18.04
SLVNGVVRL	A0201 A0202 A0203 A0205 A0206 A0214 B1510 B1517 B3909	34.47
FVDVGVSAL	A0204 A0205 A0206 A0207 A0214 B3801 C0102	6.65
YRHKVVKVM	B1510 B2701 B3801 B39011 B3909	3.94
RRSRRSLTV	B2703 B2704 B2705 B2706 B2709	2.39
ATWAENIQV	A0202 A0204 A0205 A0207 A0209 B1516	1.49

(b) IEDB

Peptide	HLA-I binding profile IEDB (top 1 percentile rank)	PPC (%)
ITYTDVLRY	A0101 A0301 A3002 B5801 B5701 A2601 A1101	54.74
TLARGFPFV	A0206 A0203 A0201	41.35
SLFGGMSWI	A0203 A0201	39.84
KSYETEYPK	A1101 A0301 A3001 A3101	38.48
LTYRHKVVK	A0301 A1101 A3101	35.36
RVLSLIGLK	A0301 A1101 A3001	34.14
AVVVNPSVK	A1101 A0301	30.92
SYHDRRWCF	A2301 A2402	26.18
RYLVKTESW	A2301 A2402	26.18
MPNGLIAQF	B5301 B3501 B0702	22.88
GPIRFVLAL	B0702 B0801	22.61
AEVEEHRTV	B4403 B4001 B4402	20.88
WMDSTKATRY	A0101 A3002	19.55
KGDTTTGVY	A3002 A0101	19.55
VVEKQSGLY	A3002 A0101	19.55
QTDNQLAVF	A0101	17.34
ALRGLPIRY	A0301	16.81
TEVMTAVGL	B4001 B4403	13.83
MTTEDMLEVW	B5701 A6802 A0206 B5301 B5801	13.7
RPAADGKTV	B0702	12.78
ILRNPGYAL	B0702	12.78
RVLEMVEDW	B5701 B5801 A3201	11.53
RSLFGGMSW	B5701 B5801 A3201	11.53
RAWNSGYEW	B5701 B5801	7.26
HTTKGAALM	A2601	5.82
SVGGVFTSV	A6802 A0203	3.46
VLNETTNWL	A0203	0.97