Affiliation: Brown University
- HIV diversity and drug resistance from plasma and non-plasma analytes in a large treatment programme in western KenyaRami Kantor
Division of Infectious Diseases, Alpert Medical School, Brown University, Providence, RI, USA
J Int AIDS Soc 17:19262. 2014..Antiretroviral resistance leads to treatment failure and resistance transmission. Resistance data in western Kenya are limited. Collection of non-plasma analytes may provide additional resistance information...
- Misclassification of first-line antiretroviral treatment failure based on immunological monitoring of HIV infection in resource-limited settingsRami Kantor
Division of Infectious Diseases, Brown University, Providence, Rhode Island, USA
Clin Infect Dis 49:454-62. 2009..The early identification of first-line antiretroviral treatment failure is critical to prevent morbidity, mortality, and drug resistance. Misclassification of failure may result in premature switching to second-line therapy...
- Impact of HIV-1 pol diversity on drug resistance and its clinical implicationsRami Kantor
Division of Infectious Diseases, The Miriam Hospital, Providence, Rhode Island 02906, USA
Curr Opin Infect Dis 19:594-606. 2006..This review summarizes publications from the past year relevant to the impact of HIV diversity on drug resistance evolution and its potential clinical implications...
- Impact of HIV-1 subtype and antiretroviral therapy on protease and reverse transcriptase genotype: results of a global collaborationRami Kantor
Division of Infectious Disease and Center for AIDS Research, Stanford University, Stanford, California, USA
PLoS Med 2:e112. 2005..The genetic differences among HIV-1 subtypes may be critical to clinical management and drug resistance surveillance as antiretroviral treatment is expanded to regions of the world where diverse non-subtype-B viruses predominate...
- Mutation patterns and structural correlates in human immunodeficiency virus type 1 protease following different protease inhibitor treatmentsThomas D Wu
Department of Biochemistry, Stanford University, Stanford, California 94305, USA
J Virol 77:4836-47. 2003..The presence of mutational clusters provides insight into the complex mutational patterns required for HIV-1 protease inhibitor resistance...
- Drug resistance in plasma and breast milk after single-dose nevirapine in subtype C HIV type 1: population and clonal sequence analysisSeble Kassaye
Department of Medicine and Infectious Diseases, Stanford University, Stanford, California 94305, USA
AIDS Res Hum Retroviruses 23:1055-61. 2007..Population sequencing underestimates the diversity of NNRTI resistance mutations within minority populations following SD NVP in subtype C HIV-1 viral RNA in plasma and breast milk...
- HIV-1 pol mutation frequency by subtype and treatment experience: extension of the HIVseq program to seven non-B subtypesSoo Yon Rhee
Division of Infectious Disease, Stanford University, Stanford, California, USA
AIDS 20:643-51. 2006..As additional non-B sequences from persons with well-characterized antiretroviral treatment histories have become available, the program has been extended to subtypes A, C, D, F, G, CRF01, and CRF02...
- Envelope coreceptor tropism, drug resistance, and viral evolution among subtype C HIV-1-infected individuals receiving nonsuppressive antiretroviral therapySeble Kassaye
Department of Medicine, Division of Infectious Diseases, Stanford University Medical Center, Stanford, CA 94305, USA
J Acquir Immune Defic Syndr 50:9-18. 2009..In resource-constrained settings, antiretroviral treatment (ART) is often continued based on clinical and CD4 responses, without virologic monitoring. ART with incomplete viral suppression was assessed in 27 subjects with subtype C HIV-1...
- Antiretroviral treatment interruptions induced by the Kenyan postelection crisis are associated with virological failureMarita Mann
Department of Public Health, Brown University, Providence, RI Department of Medicine, School of Medicine, College of Health Sciences, Moi University, Eldoret, Kenya Academic Model Providing Access To Health Care AMPATH, Eldoret, Kenya Center for Statistical Sciences, Brown University, Providence, RI Department of Medicine, Division of Infectious Diseases, Warren Alpert Medical School, Brown University, Providence, RI Department of Medicine, Division of Infectious Diseases, Indiana University, Indianapolis, IN and Department of Medicine, Division of General Internal Medicine, Indiana University, Indianapolis, IN
J Acquir Immune Defic Syndr 64:220-4. 2013..Antiretroviral treatment interruptions (TIs) cause suboptimal clinical outcomes. Data on TIs during social disruption are limited...
- Drug resistance in non-subtype B HIV-1Rami Kantor
Division of Infectious Diseases, Center for AIDS Research, Stanford University Medical Center, 300 Pasteur Drive, room S 156, Stanford, CA 94305, USA
J Clin Virol 29:152-9. 2004..Here we review HIV diversity and the published literature on drug resistance, comparing the known resistance mutations in individuals infected with subtype B to the growing experience in the treatment of non-subtype B HIV-1 worldwide...
- Extended spectrum of HIV-1 reverse transcriptase mutations in patients receiving multiple nucleoside analog inhibitorsMatthew J Gonzales
Division of Infectious Diseases, Department of Medicine, Stanford University, CA, USA
AIDS 17:791-9. 2003..To characterize reverse transcriptase (RT) mutations by their association with extent of nucleoside RT inhibitor (NRTI) therapy. To identify mutational clusters in RT sequences from persons receiving multiple NRTI...
- HIV-1 subtype C reverse transcriptase and protease genotypes in Zimbabwean patients failing antiretroviral therapyRami Kantor
Division of Infectious Diseases and AIDS Research, Stanford University, California 94305, USA
AIDS Res Hum Retroviruses 18:1407-13. 2002..Comparison of subtype C RT and protease sequences with a large database of subtype B sequences identified subtype C-specific polymorphisms and candidate drug resistance mutations...
- Polymorphism in HIV-1 non-subtype B protease and reverse transcriptase and its potential impact on drug susceptibility and drug resistance evolutionRami Kantor
Division of Infectious Diseases and AIDS Research, Stanford University, Stanford, CA, USA
AIDS Rev 5:25-35. 2003....
- Breast-milk shedding of drug-resistant HIV-1 subtype C in women exposed to single-dose nevirapineEsther J Lee
Center for AIDS Research, Division of Infectious Disease, Stanford University School of Medicine, Stanford, CA 94305, USA
J Infect Dis 192:1260-4. 2005..In 20 paired BM and plasma samples, 65% of BM and 50% of plasma RT sequences had NNRTI-resistance mutations, with divergent mutation patterns...
- Extensive drug resistance in HIV-infected Cambodian children who are undetected as failing first-line antiretroviral therapy by WHO 2010 guidelinesMia Coetzer
Division of Infectious Diseases, Alpert Medical School, Brown University, Providence, RI 02906, USA
AIDS Res Hum Retroviruses 29:985-92. 2013..Affordable routine viral load monitoring allowing for early and more accurate treatment failure diagnosis is desperately needed in resource-limited settings...
- Evolution of resistance to drugs in HIV-1-infected patients failing antiretroviral therapyRami Kantor
Division of Infectious Diseases, Center for AIDS Research, Stanford University, Stanford, California, USA
AIDS 18:1503-11. 2004..The frequency with which new drug-resistance mutations (DRM) developed and their potential consequences in patients continuing unchanged treatment despite persistent viremia were assessed...
- High frequency of syncytium-inducing and CXCR4-tropic viruses among human immunodeficiency virus type 1 subtype C-infected patients receiving antiretroviral treatmentElizabeth R Johnston
Division of Infectious Diseases and AIDS Research, Stanford University, Stanford, California 94035, USA
J Virol 77:7682-8. 2003..These results suggest that CXCR4-tropic viruses are present within the quasispecies of patients infected with subtype C virus and that antiretroviral treatment may create an environment for the emergence of CXCR4 tropism...
- Human immunodeficiency virus reverse transcriptase and protease sequence databaseSoo Yon Rhee
Division of Infectious Diseases, Department of Medicine, Stanford University, Stanford, CA 94305, USA
Nucleic Acids Res 31:298-303. 2003..Sequence data on two new molecular targets of HIV drug therapy--gp41 (cell fusion) and integrase--will be added to the database in 2003...
- Phylogenetic Investigation of a Statewide HIV-1 Epidemic Reveals Ongoing and Active Transmission Networks Among Men Who Have Sex With MenPhilip A Chan
Division of Infectious Diseases, Department of Medicine, Alpert Medical School of Brown University, Providence, RI Center for Statistical Sciences, Brown University School of Public Health, Providence, RI Department of Pathology, University of Florida, Gainesville, FL and Fenway Health, Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA
J Acquir Immune Defic Syndr 70:428-35. 2015..Molecular epidemiological evaluation of HIV-1 transmission networks can elucidate behavioral components of transmission that can be targets for intervention...
- The HIV-1 Non-subtype B Workgroup: an international collaboration for the collection and analysis of HIV-1 non-subtype B dataRami Kantor
Division of Infectious Diseases, Brown University, Providence, Rhode Island, USA
MedGenMed 7:71. 2005
- Treatment failure and drug resistance in HIV-positive patients on tenofovir-based first-line antiretroviral therapy in western KenyaKatherine Brooks
Division of Infectious Diseases, Alpert Medical School, Brown University, Providence, RI, USA
J Int AIDS Soc 19:20798. 2016....
- Sequence quality analysis tool for HIV type 1 protease and reverse transcriptaseAllison K Delong
Center for Statistical Sciences, Brown University, Providence, Rhode Island 02906, USA
AIDS Res Hum Retroviruses 28:894-901. 2012....
- HIV-1 RNA levels and antiretroviral drug resistance in blood and non-blood compartments from HIV-1-infected men and women enrolled in AIDS clinical trials group study A5077Rami Kantor
Division of Infectious Diseases, Department of Medicine, Brown University Alpert Medical School, Providence, Rhode Island, United States of America
PLoS ONE 9:e93537. 2014..We compared RNA levels in blood, genital-secretions and saliva; and drug resistance in plasma and genital-secretions of men and women starting/changing antiretroviral therapy (ART) in the AIDS Clinical Trials Group (ACTG) 5077 study...
- Persistent genital tract HIV-1 RNA shedding after change in treatment regimens in antiretroviral-experienced women with detectable plasma viral loadKartik K Venkatesh
Department of Obstetrics and Gynecology, Women and Infants Hospital of Rhode Island, Alpert Medical School, Brown University, Providence, RI, USA
J Womens Health (Larchmt) 22:330-8. 2013....
- QColors: an algorithm for conservative viral quasispecies reconstruction from short and non-contiguous next generation sequencing readsAustin Huang
Division of Infectious Disease, Computer Science Department, Brown University, Box 1910, Providence, RI 02912, USA
In Silico Biol 11:193-201. 2011..We demonstrate the utility of the method by applying it to simulations based on actual intra-patient clonal HIV-1 sequencing data...
- Short communication: Transmitted drug resistance and molecular epidemiology in antiretroviral naive HIV type 1-infected patients in Rhode IslandPhilip A Chan
Division of Infectious Disease, The Warren Alpert Medical School of Brown University, Providence, Rhode Island, USA
AIDS Res Hum Retroviruses 27:275-81. 2011..Molecular epidemiological analysis and association of resistance with phylogenetic networks using data obtained for clinical purposes may serve as useful tools for the prevention of drug resistance transmission and for contact tracing...
- Global Comparison of Drug Resistance Mutations After First-Line Antiretroviral Therapy Across Human Immunodeficiency Virus-1 SubtypesAustin Huang
Brown University, Providence, Rhode Island
Open Forum Infect Dis 3:ofv158. 2016..Conclusions. We find clear differences in DRM outcomes following first-line failure, suggesting subtype-specific ecological or biological factors that determine DRM patterns. ..
- Prediction of treatment failure using 2010 World Health Organization Guidelines is associated with high misclassification rates and drug resistance among HIV-infected Cambodian childrenBenjamin P Westley
Division of Infectious Diseases, Alpert Medical School, Brown University, Providence, Rhode Island, USA
Clin Infect Dis 55:432-40. 2012..Revised WHO pediatric guidelines were published in 2010, but their ability to accurately identify virological failure is unclear...
- Detection of HIV-1 minority variants containing the K103N drug-resistance mutation using a simple method to amplify RNA targets (SMART)Kenneth Morabito
Center for Biomedical Engineering, School of Engineering, Alpert Medical School, Brown University, Providence, RI, USA
J Mol Diagn 15:401-12. 2013..These results establish the groundwork for point-of-care drug resistance and viral load monitoring in clinical samples, which can revolutionize HIV patient care globally...
- Effects of political conflict-induced treatment interruptions on HIV drug resistanceMarita Mann
Brown University, Providence, RI 02908, USA
AIDS Rev 15:15-24. 2013..Increased awareness of such associations by clinicians as well as politicians and stakeholders is essential...
- Low prevalence of transmitted K65R and other tenofovir resistance mutations across different HIV-1 subtypes: implications for pre-exposure prophylaxisPhilip A Chan
Division of Infectious Diseases, The Warren Alpert Medical School of Brown University, Providence, Rhode Island, United States
J Int AIDS Soc 15:17701. 2012..The worldwide prevalence of transmitted tenofovir resistance in different HIV-1 subtypes is unknown...
- HIV-2 diagnosis and quantification in high-risk patientsPhilip A Chan
Department of Internal Medicine, Warren Alpert Medical School of Brown, University and Rhode Island Hospital, Providence, RI 02903, USA
AIDS Res Ther 5:18. 2008..The case highlights an extremely rare presentation of HIV-2 with severe neurological disease. We discuss the different tests available for the diagnosis and monitoring of HIV-2 in the United States...
- Online Hookup Sites for Meeting Sexual Partners Among Men Who Have Sex with Men in Rhode Island, 2013: A Call for Public Health ActionPhilip A Chan
Brown University, Department of Medicine, Providence, RI
Public Health Rep 131:264-71. 2016..Partnering with hookup sites to reach high-risk MSM for HIV prevention and treatment messaging is an important public health opportunity for reducing disease transmission risks in Rhode Island and across the United States. ..
- HIV-1 Drug Resistance Mutations: Potential Applications for Point-of-Care Genotypic Resistance TestingSoo Yon Rhee
Department of Medicine, Stanford University, Stanford, CA, United States of America
PLoS ONE 10:e0145772. 2015....
- One-Step Ligation on RNA Amplification for the Detection of Point MutationsLei Zhang
Center for Biomedical Engineering and the School of Engineering and Medical Sciences, Brown University, Providence, Rhode Island
J Mol Diagn 17:679-88. 2015..LRA is a novel point mutation detection method, with potential utilization in HIV drug resistance detection and early diagnostics of genetic disorders associated with other infectious diseases and cancer. ..
- Phylogenetic and geospatial evaluation of HIV-1 subtype diversity at the largest HIV center in Rhode IslandPhilip A Chan
Division of Infectious Diseases, Department of Medicine, Alpert Medical School of Brown University, Providence, RI, USA Electronic address
Infect Genet Evol 28:358-66. 2014..Phylogenetic and geospatial characterization of infection clusters is helpful to identify targets for treatment and prevention interventions. ..
- Short communication: new HIV infections at Southern New England academic institutions: implications for preventionPhilip A Chan
Division of Infectious Diseases, The Warren Alpert Medical School of Brown University, Providence, RI 02904, USA
AIDS Res Hum Retroviruses 29:25-9. 2013..Prevention strategies should focus on younger MSM, specifically college-age students who may be at increased risk of HIV infection...
- Evolution of primary protease inhibitor resistance mutations during protease inhibitor salvage therapyRami Kantor
Division of Infectious Diseases and AIDS Research, Stanford University, Stanford, California 94301, USA
Antimicrob Agents Chemother 46:1086-92. 2002..The persistence of L90M, V82A/F/T, G48V, and I84V during salvage therapy suggests that these mutations play a role in clinical resistance to multiple PIs...
- K103N mutation in antiretroviral therapy-naive African patients infected with HIV type 1Omobosola Akinsete
Department of Infectious Diseases, University of Minnesota Hennepin County Medical Center, Minneapolis, Minnesota 55455, USA
Clin Infect Dis 39:575-8. 2004....
- HIV type 1 genotypic variation in an antiretroviral treatment-naive population in southern IndiaPachamuthu Balakrishnan
YRG CARE, Centre for AIDS Research and Education, VHS, Taramani, Chennai 600 113, India
AIDS Res Hum Retroviruses 21:301-5. 2005..Larger scale studies need to be undertaken to better define the genotypic variation of circulating Indian subtype C viruses and their potential impact on drug susceptibility and clinical outcome in treated individuals...
- Discordances between interpretation algorithms for genotypic resistance to protease and reverse transcriptase inhibitors of human immunodeficiency virus are subtype dependentJoke Snoeck
Rega Institute for Medical Research, Minderbroedersstraat 10, 3000 Leuven, Belgium
Antimicrob Agents Chemother 50:694-701. 2006..It is not yet known whether therapy response is subtype dependent, but the advice given to clinicians based on a genotypic interpretation algorithm differs according to the subtype...
- A mutated CCR5 gene may have favorable prognostic implications in MSRami Kantor
Division of Infectious Diseases, Sheba Medical Center, Tel Hashomer, Israel
Neurology 61:238-40. 2003..Progression to disability was prolonged in Delta32CCR5 homozygotes and heterozygotes compared with MS patients with the CCR5 wild-type genotype (p < 0.005). Mutated CCR5 allele may be considered a favorable prognostic factor in MS...