Designing Peptide-Based HIV Vaccine for Chinese

Table 2

Predicted HIV T helper cell epitopes for Chinese population.

Amino acid sequences	Protein destination^1	HIV%^2	DR%^3	Total; coverage^4	Specific coverage^5	Reference^6
WIILGLNKIVRMYSP	Gag 265	43%	89%	41%	40.72%	Younes et al., 2003 [18]
PVVSTQLLLNGSLAE	Env 262	38%	74%	34%	27.73%	August et al., 2013 [19]
VQMAVFIHNFKRKGG	Pol 892	24%	93%	23%	9.79%	NA (IEDB)
LRIIFAVLSIVNRVR	Env 702	24%	96%	26%	4.39%	Sette et al., 2005 [20]
ILDLWVYHTQGYFPD	Nef 127	12%	63%	10%	5.37%	Sette et al., 2002 [21]
LNKIVRMYSPTSILD	Gag 284	25%	100%	25%	1.81%	Korber et al., 2001 [22]
WGIKQLQARVLAVER	Env 588	22%	87%	20%	1.25%	NA
GAFDLSFFLKEKGGL	Nef 91	4%	63%	4%	1.20%	NA
VDRFYKTLRAEQATQ	Gag 297T	15%	98%	15%	1.17%	NA
GFPVRPQVPLRPMTY	Nef 85	9%	65%	6%	0.84%	Korber et al., 2002 [23]
TPGIRYQYNVLPQGW	Pol 295	23%	93%	22%	0.78%	NA
VDRFYKTLRAEQASQ	Gag 297S	15%	98%	15%	0.71%	Bozzacco et al., 2012 [24]
RQLLSGIVQQQSNLL	Env 549	27%	83%	26%	0.56%	NA
GLIYSKKRQEILDLW	Nef 117	6%	67%	5%	0.50%	NA
KPCVKLTPLCVTLNC	Env 126	17%	89%	16%	0.28%	NA
YKRWIILGLNKIVRM	Gag 272	43%	89%	41%	0.24%	Sette et al., 2002 [25]
PLTFGWCFKLVPVDP	Nef 144	11%	52%	11%	0.21%	NA
FGWCFKLVPVDPREV	Nef 147	4%	93%	4%	0.24%	NA
CKQIIKQLQPALQTG	Gag 67	8%	98%	8%	0.16%	NA
LYKYKVVKIEPLGVA	Env 489	6%	100%	6%	0.14%	Dzuris et al., 2001 [26]
Total specific coverage^7					98.1%

1The location of epitopes on HIV viral gene products and the first amino acid of the viral gene product.
²The epitope sequence presented in the proportion of 821 HIV genome sequences.
³The epitope sequence presented in the proportion of 46 DR alleles.
⁴The ratio of the epitope appeared in both 821 HIV genome and DR allele sequences.
⁵Calculated based on the coverage of the epitope in the rest of the dataset after removing the preceding epitope.
⁶Reference where the epitope had been published. NA: not available in published literature.
⁷Sum of specific coverage for all 20 epitopes.