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Displaying record number 61083

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HXB2 Location	Gag(396-404) p2p7p1p6(33-41) DNA(1975..2001)	Gag Epitope Map
Author Location	p7(19-27)
Epitope	GKEGHIAKN	Epitope Alignment
Subtype	C
Species (MHC/HLA)	human
Immunogen	HIV-1 infection
Patient MHC/HLA	CH162: A*30:01, A*34:02, B*42:02, B*44:03, C*04:01, C*17:01
Country	South Africa
Experimental methods	CD8 T-cell Elispot - IFNγ, Other
Keywords	computational epitope prediction, escape, acute/early infection, mutation acquisition

Notes

• 17 patients with acute HIV-1 infection were followed to validate that (1) relative escape rate (2) location and identity of escape mutations and (3) epistatic effects on escape, could be predicted within a host by using a simple model based on population genetics and known fitness measures of HIV polyproteins. In general escape location was found most at residues with the lowest fitness cost and escape time correlates with early detection of mutants when T cell response was first detected.
• Epitope GKEGHIAKN had a fitness cost ΔE of 0.398 and T cell response was first detected to it at 40d, escape time was 26.86 days.

References

Barton2016 John P. Barton, Nilu Goonetilleke, Thomas C. Butler, Bruce D. Walker, Andrew J. McMichael, and Arup K. Chakraborty. Relative Rate and Location of Intra-Host HIV Evolution to Evade Cellular Immunity Are Predictable. Nat. Commun., 7:11660, 23 May 2016. PubMed ID: 27212475. Show all entries for this paper.