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Items: 1 to 20 of 97

1.

Modeling sequence evolution in HIV-1 infection with recombination.

Giorgi EE, Korber BT, Perelson AS, Bhattacharya T.

J Theor Biol. 2013 Jul 21;329:82-93. doi: 10.1016/j.jtbi.2013.03.026. Epub 2013 Apr 6.

2.

Evolution. Epistasis in RNA viruses.

Michalakis Y, Roze D.

Science. 2004 Nov 26;306(5701):1492-3. No abstract available.

PMID:
15567846
3.
4.

Recombination elevates the effective evolutionary rate and facilitates the establishment of HIV-1 infection in infants after mother-to-child transmission.

Sanborn KB, Somasundaran M, Luzuriaga K, Leitner T.

Retrovirology. 2015 Nov 16;12:96. doi: 10.1186/s12977-015-0222-0.

5.

Role of minority populations of human immunodeficiency virus type 1 in the evolution of viral resistance to protease inhibitors.

Charpentier C, Dwyer DE, Mammano F, Lecossier D, Clavel F, Hance AJ.

J Virol. 2004 Apr;78(8):4234-47.

6.

Evolution of the human immunodeficiency virus type 1 protease: effects on viral replication capacity and protease robustness.

Capel E, Martrus G, Parera M, Clotet B, Martínez MA.

J Gen Virol. 2012 Dec;93(Pt 12):2625-34. doi: 10.1099/vir.0.045492-0. Epub 2012 Aug 29.

PMID:
22933665
7.

Modeling sequence evolution in acute HIV-1 infection.

Lee HY, Giorgi EE, Keele BF, Gaschen B, Athreya GS, Salazar-Gonzalez JF, Pham KT, Goepfert PA, Kilby JM, Saag MS, Delwart EL, Busch MP, Hahn BH, Shaw GM, Korber BT, Bhattacharya T, Perelson AS.

J Theor Biol. 2009 Nov 21;261(2):341-60. doi: 10.1016/j.jtbi.2009.07.038. Epub 2009 Aug 4. Review. Erratum in: J Theor Biol. 2012 Mar 21;297:187.

8.

Stochastic simulations suggest that HIV-1 survives close to its error threshold.

Tripathi K, Balagam R, Vishnoi NK, Dixit NM.

PLoS Comput Biol. 2012;8(9):e1002684. doi: 10.1371/journal.pcbi.1002684. Epub 2012 Sep 13.

9.

Recombination favors the evolution of drug resistance in HIV-1 during antiretroviral therapy.

Carvajal-Rodríguez A, Crandall KA, Posada D.

Infect Genet Evol. 2007 Jul;7(4):476-83. Epub 2007 Feb 12.

10.

A genetic-algorithm approach to simulating human immunodeficiency virus evolution reveals the strong impact of multiply infected cells and recombination.

Bocharov G, Ford NJ, Edwards J, Breinig T, Wain-Hobson S, Meyerhans A.

J Gen Virol. 2005 Nov;86(Pt 11):3109-18.

PMID:
16227234
11.

High-throughput identification of genetic interactions in HIV-1.

Weinreich DM.

Nat Genet. 2011 May;43(5):398-400. doi: 10.1038/ng.820. No abstract available.

PMID:
21522176
12.

Coalescent Inference Using Serially Sampled, High-Throughput Sequencing Data from Intrahost HIV Infection.

Dialdestoro K, Sibbesen JA, Maretty L, Raghwani J, Gall A, Kellam P, Pybus OG, Hein J, Jenkins PA.

Genetics. 2016 Apr;202(4):1449-72. doi: 10.1534/genetics.115.177931. Epub 2016 Feb 8.

13.

Probing the sequence space available for HIV-1 evolution.

ter Brake O, von Eije KJ, Berkhout B.

AIDS. 2008 Sep 12;22(14):1875-7. doi: 10.1097/QAD.0b013e328309efe3.

PMID:
18753935
14.
15.

Mechanisms and factors that influence high frequency retroviral recombination.

Delviks-Frankenberry K, Galli A, Nikolaitchik O, Mens H, Pathak VK, Hu WS.

Viruses. 2011 Sep;3(9):1650-80. doi: 10.3390/v3091650. Epub 2011 Sep 9. Review.

16.

Nef gene evolution from a single transmitted strain in acute SIV infection.

Bimber BN, Chugh P, Giorgi EE, Kim B, Almudevar AL, Dewhurst S, O'Connor DH, Lee HY.

Retrovirology. 2009 Jun 8;6:57. doi: 10.1186/1742-4690-6-57.

17.

Evidence for positive epistasis in HIV-1.

Bonhoeffer S, Chappey C, Parkin NT, Whitcomb JM, Petropoulos CJ.

Science. 2004 Nov 26;306(5701):1547-50. Erratum in: Science. 2008 May 9;320(5877):746.

18.

Recombination Enhances HIV-1 Envelope Diversity by Facilitating the Survival of Latent Genomic Fragments in the Plasma Virus Population.

Immonen TT, Conway JM, Romero-Severson EO, Perelson AS, Leitner T.

PLoS Comput Biol. 2015 Dec 22;11(12):e1004625. doi: 10.1371/journal.pcbi.1004625. eCollection 2015 Dec.

19.

HIV-1 Mutation and Recombination Rates Are Different in Macrophages and T-cells.

Cromer D, Schlub TE, Smyth RP, Grimm AJ, Chopra A, Mallal S, Davenport MP, Mak J.

Viruses. 2016 Apr 22;8(4):118. doi: 10.3390/v8040118.

20.

Scaling law characterizing the dynamics of the transition of HIV-1 to error catastrophe.

Gupta V, Dixit NM.

Phys Biol. 2015 Sep 2;12(5):054001. doi: 10.1088/1478-3975/12/5/054001.

PMID:
26331636

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