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Combined HIV-1 sequence and integration site analysis informs viral dynamics and allows reconstruction of replicating viral ancestors.
Patro SC, Brandt LD, Bale MJ, Halvas EK, Joseph KW, Shao W, Wu X, Guo S, Murrell B, Wiegand A, Spindler J, Raley C, Hautman C, Sobolewski M, Fennessey CM, Hu WS, Luke B, Hasson JM, Niyongabo A, Capoferri AA, Keele BF, Milush J, Hoh R, Deeks SG, Maldarelli F, Hughes SH, Coffin JM, Rausch JW, Mellors JW, Kearney MF. Patro SC, et al. Among authors: capoferri aa. Proc Natl Acad Sci U S A. 2019 Dec 17;116(51):25891-25899. doi: 10.1073/pnas.1910334116. Epub 2019 Nov 27. Proc Natl Acad Sci U S A. 2019. PMID: 31776247 Free PMC article.
Low genetic diversity may be an Achilles heel of SARS-CoV-2.
Rausch JW, Capoferri AA, Katusiime MG, Patro SC, Kearney MF. Rausch JW, et al. Among authors: capoferri aa. Proc Natl Acad Sci U S A. 2020 Oct 6;117(40):24614-24616. doi: 10.1073/pnas.2017726117. Epub 2020 Sep 21. Proc Natl Acad Sci U S A. 2020. PMID: 32958678 Free PMC article. No abstract available.
HIV Infected T Cells Can Proliferate in vivo Without Inducing Expression of the Integrated Provirus.
Musick A, Spindler J, Boritz E, Pérez L, Crespo-Vélez D, Patro SC, Sobolewski MD, Bale MJ, Reid C, Keele BF, Capoferri A, Shao W, Wiegand A, Simonetti FR, Mellors JW, Hughes SH, Coffin JM, Maldarelli F, Kearney MF. Musick A, et al. Front Microbiol. 2019 Oct 1;10:2204. doi: 10.3389/fmicb.2019.02204. eCollection 2019. Front Microbiol. 2019. PMID: 31632364 Free PMC article.
Defective proviruses rapidly accumulate during acute HIV-1 infection.
Bruner KM, Murray AJ, Pollack RA, Soliman MG, Laskey SB, Capoferri AA, Lai J, Strain MC, Lada SM, Hoh R, Ho YC, Richman DD, Deeks SG, Siliciano JD, Siliciano RF. Bruner KM, et al. Among authors: capoferri aa. Nat Med. 2016 Sep;22(9):1043-9. doi: 10.1038/nm.4156. Epub 2016 Aug 8. Nat Med. 2016. PMID: 27500724 Free PMC article.
Expanded cellular clones carrying replication-competent HIV-1 persist, wax, and wane.
Wang Z, Gurule EE, Brennan TP, Gerold JM, Kwon KJ, Hosmane NN, Kumar MR, Beg SA, Capoferri AA, Ray SC, Ho YC, Hill AL, Siliciano JD, Siliciano RF. Wang Z, et al. Among authors: capoferri aa. Proc Natl Acad Sci U S A. 2018 Mar 13;115(11):E2575-E2584. doi: 10.1073/pnas.1720665115. Epub 2018 Feb 26. Proc Natl Acad Sci U S A. 2018. PMID: 29483265 Free PMC article.
A quantitative approach for measuring the reservoir of latent HIV-1 proviruses.
Bruner KM, Wang Z, Simonetti FR, Bender AM, Kwon KJ, Sengupta S, Fray EJ, Beg SA, Antar AAR, Jenike KM, Bertagnolli LN, Capoferri AA, Kufera JT, Timmons A, Nobles C, Gregg J, Wada N, Ho YC, Zhang H, Margolick JB, Blankson JN, Deeks SG, Bushman FD, Siliciano JD, Laird GM, Siliciano RF. Bruner KM, et al. Among authors: capoferri aa. Nature. 2019 Feb;566(7742):120-125. doi: 10.1038/s41586-019-0898-8. Epub 2019 Jan 30. Nature. 2019. PMID: 30700913 Free PMC article.
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