University of Pretoria
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Sequencing data and statistical analysis for evaluation of evolution within HIV-1 polymerase gene

journal contribution
posted on 2022-09-12, 14:17 authored by Paballo NkonePaballo Nkone, Simnikiwe H. Mayaphi, Caroline T Tiemessen, Shayne Loubser, Thomas C. Quinn, Andrew D. Redd

This is data that was analysed for my dissertation titled 'Molecular characterisation and assessment of evolution of the HIV-1 polymerase gene during early and chronic HIV-1 infection'. The same data was used for a journal article titled 'Deep sequencing of the HIV-1 polymerase gene for characterisation of cytotoxic T-lymphocyte epitopes during early and chronic disease stages' published on Virology Journal volume 19, Article number: 56 (2022) 

The dataset included data on prediction of HIV-1 pol CTL epitopes and data on using sequence diversity and Shannon entropy for identifying recent infections. 


National Research Foundation

Poliomyelitis Research Fund

Discovery Health Foundation

National Health Laboratory Services Research grant



Medical Virology