Literature DB >> 23567647

Modeling sequence evolution in HIV-1 infection with recombination.

Elena E Giorgi1, Bette T Korber, Alan S Perelson, Tanmoy Bhattacharya.   

Abstract

Previously we proposed two simplified models of early HIV-1 evolution. Both showed that under a model of neutral evolution and exponential growth, the mean Hamming distance (HD) between genetic sequences grows linearly with time. In this paper we describe a more realistic continuous-time, age-dependent mathematical model of infection and viral replication, and show through simulations that even in this more complex description, the mean Hamming distance grows linearly with time. This remains unchanged when we introduce recombination, though the confidence intervals of the mean HD obtained ignoring recombination are overly conservative. Published by Elsevier Ltd.

Entities:  

Mesh：

Year:  2013        PMID： 23567647      PMCID： PMC3667750          DOI： 10.1016/j.jtbi.2013.03.026

Source DB:  PubMed          Journal:  J Theor Biol        ISSN： 0022-5193            Impact factor:   2.691


  41 in total

1.  Recombination: Multiply infected spleen cells in HIV patients.

Authors:  Andreas Jung; Reinhard Maier; Jean-Pierre Vartanian; Gennady Bocharov; Volker Jung; Ulrike Fischer; Eckart Meese; Simon Wain-Hobson; Andreas Meyerhans
Journal:  Nature       Date:  2002-07-11       Impact factor: 49.962

2.  Dynamics of HIV-1 recombination in its natural target cells.

Authors:  David N Levy; Grace M Aldrovandi; Olaf Kutsch; George M Shaw
Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-09       Impact factor: 11.205

3.  High rate of recombination throughout the human immunodeficiency virus type 1 genome.

Authors:  A E Jetzt; H Yu; G J Klarmann; Y Ron; B D Preston; J P Dougherty
Journal:  J Virol       Date:  2000-02       Impact factor: 5.103

4.  Rapid production and clearance of HIV-1 and hepatitis C virus assessed by large volume plasma apheresis.

Authors:  B Ramratnam; S Bonhoeffer; J Binley; A Hurley; L Zhang; J E Mittler; M Markowitz; J P Moore; A S Perelson; D D Ho
Journal:  Lancet       Date:  1999-11-20       Impact factor: 79.321

5.  Mechanisms of nonrandom human immunodeficiency virus type 1 infection and double infection: preference in virus entry is important but is not the sole factor.

Authors:  Jianbo Chen; Que Dang; Derya Unutmaz; Vinay K Pathak; Frank Maldarelli; Douglas Powell; Wei-Shau Hu
Journal:  J Virol       Date:  2005-04       Impact factor: 5.103

6.  A novel antiviral intervention results in more accurate assessment of human immunodeficiency virus type 1 replication dynamics and T-cell decay in vivo.

Authors:  Martin Markowitz; Michael Louie; Arlene Hurley; Eugene Sun; Michele Di Mascio; Alan S Perelson; David D Ho
Journal:  J Virol       Date:  2003-04       Impact factor: 5.103

7.  Analysis of cell kinetics using a cell division marker: mathematical modeling of experimental data.

Authors:  Samuel Bernard; Laurent Pujo-Menjouet; Michael C Mackey
Journal:  Biophys J       Date:  2003-05       Impact factor: 4.033

8.  Dynamics of HIV viremia and antibody seroconversion in plasma donors: implications for diagnosis and staging of primary HIV infection.

Authors:  Eberhard W Fiebig; David J Wright; Bhupat D Rawal; Patricia E Garrett; Richard T Schumacher; Lorraine Peddada; Charles Heldebrant; Richard Smith; Andrew Conrad; Steven H Kleinman; Michael P Busch
Journal:  AIDS       Date:  2003-09-05       Impact factor: 4.177

9.  Pervasive genomic recombination of HIV-1 in vivo.

Authors:  Daniel Shriner; Allen G Rodrigo; David C Nickle; James I Mullins
Journal:  Genetics       Date:  2004-08       Impact factor: 4.562

10.  Nonrandom HIV-1 infection and double infection via direct and cell-mediated pathways.

Authors:  Que Dang; Jianbo Chen; Derya Unutmaz; John M Coffin; Vinay K Pathak; Douglas Powell; Vineet N KewalRamani; Frank Maldarelli; Wei-Shau Hu
Journal:  Proc Natl Acad Sci U S A       Date:  2004-01-05       Impact factor: 11.205
View more
  4 in total

Review 1.  The emergence of drug resistant HIV variants and novel anti-retroviral therapy.

Authors:  Koosha Paydary; Parisa Khaghani; Sahra Emamzadeh-Fard; Seyed Ahmad Seyed Alinaghi; Kazem Baesi
Journal:  Asian Pac J Trop Biomed       Date:  2013-07

2.  Dual Pathways of Human Immunodeficiency Virus Type 1 Envelope Glycoprotein Trafficking Modulate the Selective Exclusion of Uncleaved Oligomers from Virions.

Authors:  Shijian Zhang; Hanh T Nguyen; Haitao Ding; Jia Wang; Shitao Zou; Lihong Liu; Debjani Guha; Dana Gabuzda; David D Ho; John C Kappes; Joseph Sodroski
Journal:  J Virol       Date:  2021-01-13       Impact factor: 5.103

3.  Evolution during primary HIV infection does not require adaptive immune selection.

Authors:  David A Swan; Morgane Rolland; Joshua T Herbeck; Joshua T Schiffer; Daniel B Reeves
Journal:  Proc Natl Acad Sci U S A       Date:  2022-02-15       Impact factor: 11.205

4.  Tracking HIV-1 recombination to resolve its contribution to HIV-1 evolution in natural infection.

Authors:  Hongshuo Song; Elena E Giorgi; Vitaly V Ganusov; Fangping Cai; Gayathri Athreya; Hyejin Yoon; Oana Carja; Bhavna Hora; Peter Hraber; Ethan Romero-Severson; Chunlai Jiang; Xiaojun Li; Shuyi Wang; Hui Li; Jesus F Salazar-Gonzalez; Maria G Salazar; Nilu Goonetilleke; Brandon F Keele; David C Montefiori; Myron S Cohen; George M Shaw; Beatrice H Hahn; Andrew J McMichael; Barton F Haynes; Bette Korber; Tanmoy Bhattacharya; Feng Gao
Journal:  Nat Commun       Date:  2018-05-15       Impact factor: 14.919
  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.