Journal article

Differentiating founder and chronic HIV envelope sequences

John M Murray, Stephen Maher, Talia Mota, Kazuo Suzuki, Anthony D Kelleher, Rob J Center, Damian Purcell

PLOS ONE | PUBLIC LIBRARY SCIENCE | Published : 2017

Abstract

Significant progress has been made in characterizing broadly neutralizing antibodies against the HIV envelope glycoprotein Env, but an effective vaccine has proven elusive. Vaccine development would be facilitated if common features of early founder virus required for transmission could be identified. Here we employ a combination of bioinformatic and operations research methods to determine the most prevalent features that distinguish 78 subtype B and 55 subtype C founder Env sequences from an equal number of chronic sequences. There were a number of equivalent optimal networks (based on the fewest covarying amino acid (AA) pairs or a measure of maximal covariance) that separated founders fr..

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Grants

Awarded by UNSW Goldstar grant


Funding Acknowledgements

JM was funded by a UNSW Goldstar grant (RG134772, https://research.unsw.edu.au/ unsw-internal-funding-opportunities). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.