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Select item 67216741.

Deep Sequencing Reveals Central Nervous System Compartmentalization in Multiple Transmitted/Founder Virus Acute HIV-1 Infection

Sodsai Tovanabutra, Rujipas Sirijatuphat, Phuc T. Pham, Lydia Bonar, Elizabeth A. Harbolick, Meera Bose, Hongshuo Song, David Chang, Celina Oropeza, Anne Marie O’Sullivan, Joyce Balinang, Eugene Kroon, Donn J. Colby, Carlo Sacdalan, Joanna Hellmuth, Phillip Chan, Peeriya Prueksakaew, Suteeraporn Pinyakorn, Linda L. Jagodzinski, Duanghathai Sutthichom, Suwanna Pattamaswin, Mark de Souza, Robert A. Gramzinski, Jerome H. Kim, Nelson L. Michael, Merlin L. Robb, Nittaya Phanuphak, Jintanat Ananworanich, Victor Valcour, Gustavo H. Kijak, Eric Sanders-Buell, Serena Spudich, The MHRP Viral Sequencing Core, the RV254/SEARCH 010 Study Team

Cells. 2019 Aug; 8(8): 902. Published online 2019 Aug 15. doi: 10.3390/cells8080902

PMCID:: PMC6721674

Abstract Article PDF–1.3M

Select item 60567912.

Higher Frequency of HIV-1 Drug Resistance and Increased Nucleoside Reverse Transcriptase Inhibitor Mutations among the HIV-1 Positive Antiretroviral Therapy–Naïve patients Coinfected With Mycobacterium tuberculosis Compared With Only HIV Infection in India

Sanjeev Sinha, Kartik Gupta, Nawaid Hussain Khan, Dibyakanti Mandal, Mikashmi Kohli, BK Das, RM Pandey

Infect Dis (Auckl) 2018; 11: 1178633718788870. Published online 2018 Jul 23. doi: 10.1177/1178633718788870

PMCID:: PMC6056791

Abstract Article PDF–804K

Select item 46581323.

Utility of Metagenomic Next-Generation Sequencing for Characterization of HIV and Human Pegivirus Diversity

Ka-Cheung Luk, Michael G. Berg, Samia N. Naccache, Beniwende Kabre, Scot Federman, Dora Mbanya, Lazare Kaptué, Charles Y. Chiu, Catherine A. Brennan, John Hackett, Jr

PLoS One. 2015; 10(11): e0141723. Published online 2015 Nov 23. doi: 10.1371/journal.pone.0141723

PMCID:: PMC4658132

Abstract Article PDF–3.3M

Select item 39389314.

Prevalence of Drug Resistance in Human Immunodeficiency Virus Type 1-Infected Treatment-Naive Children in Pune, India

Mukesh Kumar, Sourav Sen, Rakesh K. Gupta, Devidas Chaturbhuj, Srikanth P. Tripathy, Ramesh S. Paranjape

AIDS Res Hum Retroviruses. 2014 Mar 1; 30(3): 294–298. doi: 10.1089/aid.2013.0222

PMCID:: PMC3938931

Abstract Article PDF–226K

Select item 33995575.

Sequence Quality Analysis Tool for HIV Type 1 Protease and Reverse Transcriptase

Allison K. DeLong, Mingham Wu, Diane Bennett, Neil Parkin, Zhijin Wu, Joseph W. Hogan, Rami Kantor

AIDS Res Hum Retroviruses. 2012 Aug; 28(8): 894–901. doi: 10.1089/aid.2011.0120

PMCID:: PMC3399557

Abstract Article PDF–649K

Select item 30094976.

Using genomic signatures for HIV-1 sub-typing

Aridaman Pandit, Somdatta Sinha

BMC Bioinformatics. 2010; 11(Suppl 1): S26. Published online 2010 Jan 18. doi: 10.1186/1471-2105-11-S1-S26

PMCID:: PMC3009497

Abstract Article PDF–1.6M

Select item 29813807.

Identification and Characterization of CRF02_AG, CRF06_cpx, and CRF09_cpx Recombinant Subtypes in Mali, West Africa

Hiromi Imamichi, Ousmane Koita, Djeneba Dabitao, Sounkalo Dao, Mahamadou Ibrah, Dramane Sogoba, Robin L. Dewar, Steve C. Berg, Min-Kang Jiang, Mark Parta, Janice A. Washington, Michael A. Polis, H. Clifford Lane, Anatole Tounkara

AIDS Res Hum Retroviruses. 2009 Jan; 25(1): 45–55. doi: 10.1089/aid.2008.0111

PMCID:: PMC2981380

Abstract Article PDF–304K

Select item 29113708.

Diversity of HIV-1 Subtype B: Implications to the Origin of BF Recombinants

Élcio Leal, Fabiola E. Villanova

PLoS One. 2010; 5(7): e11833. Published online 2010 Jul 28. doi: 10.1371/journal.pone.0011833

PMCID:: PMC2911370

Abstract Article PDF–1.1M

Select item 27162999.

Discovery of novel targets for multi-epitope vaccines: Screening of HIV-1 genomes using association rule mining

Sinu Paul, Helen Piontkivska

Retrovirology. 2009; 6: 62. Published online 2009 Jul 6. doi: 10.1186/1742-4690-6-62

PMCID:: PMC2716299

Abstract Article PDF–996K

Select item 266666010.

Extensive purifying selection acting on synonymous sites in HIV-1 Group M sequences

Nobubelo K Ngandu, Konrad Scheffler, Penny Moore, Zenda Woodman, Darren Martin, Cathal Seoighe

Virol J. 2008; 5: 160. Published online 2008 Dec 23. doi: 10.1186/1743-422X-5-160

PMCID:: PMC2666660

Abstract Article PDF–920K

Select item 263094111.

Conserved positive selection signals in gp41 across multiple subtypes and difference in selection signals detectable in gp41 sequences sampled during acute and chronic HIV-1 subtype C infection

Gama P Bandawe, Darren P Martin, Florette Treurnicht, Koleka Mlisana, Salim S Abdool Karim, Carolyn Williamson, The CAPRISA 002 Acute Infection Study Team

Virol J. 2008; 5: 141. Published online 2008 Nov 24. doi: 10.1186/1743-422X-5-141

PMCID:: PMC2630941

Abstract Article PDF–522K

Select item 259735712.

Human Immunodeficiency Virus Type 1 Reverse-Transcriptase and Protease Subtypes: Classification, Amino Acid Mutation Patterns, and Prevalence in a Northern California Clinic-Based Population

Matthew J. Gonzales, Rhoderick N. Machekano, Robert W. Shafer

J Infect Dis. Author manuscript; available in PMC 2008 Dec 8.

Published in final edited form as: J Infect Dis. 2001 Oct 15; 184(8): 998–1006. Published online 2001 Sep 10. doi: 10.1086/323601

PMCID:: PMC2597357

Abstract Article PDF–1.0M

Select item 229274313.

Exceptional molecular and coreceptor-requirement properties of molecular clones isolated from an Human Immunodeficiency Virus Type-1 subtype C infection

Prasanta K Dash, Nagadenahalli B Siddappa, Asokan Mangaiarkarasi, Aruna V Mahendarkar, Padmanabhan Roshan, Krishnamurthy Kumar Anand, Anita Mahadevan, Parthasarathy Satishchandra, Susarla K Shankar, Vinayaka R Prasad, Udaykumar Ranga

Retrovirology. 2008; 5: 25. Published online 2008 Mar 7. doi: 10.1186/1742-4690-5-25

Expression of Concern in:: Retrovirology. 2024; 21: 19.

PMCID:: PMC2292743

Abstract Article PDF–1.3M

Select item 124847014.

Use of Sequence Data Generated in the Bayer TruGene Genotyping Assay To Recognize and Characterize Non-Subtype-B Human Immunodeficiency Virus Type 1 Strains

Diane L. Hirigoyen, Charles P. Cartwright

J Clin Microbiol. 2005 Oct; 43(10): 5263–5271. doi: 10.1128/JCM.43.10.5263-5271.2005

PMCID:: PMC1248470

Abstract Article PDF–342K

Select item 108722015.

Impact of HIV-1 Subtype and Antiretroviral Therapy on Protease and Reverse Transcriptase Genotype: Results of a Global Collaboration

Rami Kantor, David A Katzenstein, Brad Efron, Ana Patricia Carvalho, Brian Wynhoven, Patricia Cane, John Clarke, Sunee Sirivichayakul, Marcelo A Soares, Joke Snoeck, Candice Pillay, Hagit Rudich, Rosangela Rodrigues, Africa Holguin, Koya Ariyoshi, Maria Belen Bouzas, Pedro Cahn, Wataru Sugiura, Vincent Soriano, Luis F Brigido, Zehava Grossman, Lynn Morris, Anne-Mieke Vandamme, Amilcar Tanuri, Praphan Phanuphak, Jonathan N Weber, Deenan Pillay, P. Richard Harrigan, Ricardo Camacho, Jonathan M Schapiro, Robert W Shafer

PLoS Med. 2005 Apr; 2(4): e112. Published online 2005 Apr 26. doi: 10.1371/journal.pmed.0020112

PMCID:: PMC1087220

Abstract Article PDF–729K

Select item 54411416.

Evidence for Heterogeneous Selective Pressures in the Evolution of the env Gene in Different Human Immunodeficiency Virus Type 1 Subtypes

Simon A. A. Travers, Mary J. O'Connell, Grace P. McCormack, James O. McInerney

J Virol. 2005 Feb; 79(3): 1836–1841. doi: 10.1128/JVI.79.3.1836-1841.2005

PMCID:: PMC544114

Abstract Article PDF–181K

Select item 47848017.

Nucleotide and Amino Acid Polymorphisms at Drug Resistance Sites in Non-B-Subtype Variants of Human Immunodeficiency Virus Type 1

Dan Turner, Bluma Brenner, Daniela Moisi, Mervi Detorio, Raymond Cesaire, Takashi Kurimura, Haruyo Mori, Max Essex, Shlomo Maayan, Mark A. Wainberg

Antimicrob Agents Chemother. 2004 Aug; 48(8): 2993–2998. doi: 10.1128/AAC.48.8.2993-2998.2004

PMCID:: PMC478480

Abstract Article PDF–66K

Select item 42784418.

Performance of the Celera Diagnostics ViroSeq HIV-1 Genotyping System for Sequence-Based Analysis of Diverse Human Immunodeficiency Virus Type 1 Strains

Susan H. Eshleman, John Hackett, Jr., Priscilla Swanson, Shawn P. Cunningham, Birgit Drews, Catherine Brennan, Sushil G. Devare, Léopold Zekeng, Lazare Kaptué, Natalia Marlowe

J Clin Microbiol. 2004 Jun; 42(6): 2711–2717. doi: 10.1128/JCM.42.6.2711-2717.2004

PMCID:: PMC427844

Abstract Article PDF–76K

Select item 13589219.

Human Immunodeficiency Virus Type 1 (HIV-1) Quasispecies at the Sites of Mycobacterium tuberculosis Infection Contribute to Systemic HIV-1 Heterogeneity

Kalonji R. Collins, Miguel E. Quiñones-Mateu, Mianda Wu, Henry Luzze, John L. Johnson, Christina Hirsch, Zahra Toossi, Eric J. Arts

J Virol. 2002 Feb; 76(4): 1697–1706. doi: 10.1128/JVI.76.4.1697-1706.2002

PMCID:: PMC135892

Abstract Article PDF–497K

Select item 13572220.

Molecular Epidemiology of Human Immunodeficiency Virus Type 1 Transmission in a Heterosexual Cohort of Discordant Couples in Zambia

Stanley A. Trask, Cynthia A. Derdeyn, Ulgen Fideli, Yalu Chen, Sreelatha Meleth, Francis Kasolo, Rosemary Musonda, Eric Hunter, Feng Gao, Susan Allen, Beatrice H. Hahn

J Virol. 2002 Jan; 76(1): 397–405. doi: 10.1128/JVI.76.1.397-405.2002

PMCID:: PMC135722

Abstract Article PDF–850K

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