Journal Articles

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In vitro replicative fitness of early Transmitted founder HIV-1 variants and sensitivity to Interferon alpha. Sci Rep. (in press)

Plasma metabolic signature and abnormalities in HIV-infected individuals on long-term successful antiretroviral therapy. MetaboliteSep 30;9(10). pii: E210. doi: 10.3390/metabo9100210 [PMID:31574898]

Systemic inflammation and the increased risk of inflamm-aging and age-associated diseases in people living with HIV on long term suppressive antiretroviral therapy. Front. Immunol.

HIV Elite Control is associated with reduced TRAILshort expression. AIDS, 33(11):1757-1763. [PMID: 31149947).

A viral genome wide association study and genotypic resistance testing in patients failing first line antiretroviral therapy in the first large countrywide Ethiopian HIV cohort. BMC Infect Dis. 2019 Jul 1;19(1):569. [PMID: 31262272]

GS-CA compounds: First-In-Class HIV-1 capsid inhibitors covering multiple grounds. Front Microbiol 10:1227. doi: 10.3389/fmicb.2019.01227 [31312185]

Microfluidic centrifugation assisted precipitation-based DNA quantification.Lab Chip. 2019 Apr 23;19(9):1657-1664. [PMID: 30931470]

HIV-1 subtype C with PYxE insertion has enhanced binding of Gag-p6 to host cell protein ALIX and increased replication fitness. J Virol. Feb 13. pii: JVI.00077-19. doi: 10.1128/JVI.00077-19. [PMID: 30760577]

Mutations in LTR kB transcription factor binding sites in plasma virus among South African people living with HIV-1 (PLHIV). AIDS Res Hum Retroviruses. Feb 22. doi: 10.1089/AID.2018.0293. [PMID: 30793917]

Strain-specific effect on biphasic DNA binding by HIV-1 integrase. AIDS 33(3):588-592. [PMID:30475264].

Characterization of inducible transcription and translation-competent HIV-1 using the RNAscope ISH technology at a single-cell resolution. Front Microbiol 9:2358. doi: 10.3389/fmicb.2018.02358 [PMID: 30333813].

Structural implications of genotypic variations in HIV-1 Integrase From diverse subtypes. Front Microbiol9:1754. doi: 10.3389/fmicb.2018.01754 [PMID: 30116231].

Antiretroviral potency of 4’-Ethnyl-2’-Fluoro-2’-deoxyadenosine, tenofovir alafenamide and second-generation non-nucleoside reverse-transcriptase inhibitors across diverse HIV-1 subtypes. J Antimicrob Chemother, 73(10):2721-2728 [PMID: 30053052].

Unique phenotypic characteristics of recently transmitted HIV-1 subtype C envelope glycoprotein gp120: Use of CXCR6 co-receptor by transmitted founder viruses. J Virol. 92(9). Pii:e00063-18. [PMID: 29491151]

Transcriptomics and targeted proteomics analysis to gain insights into the immune-control mechanisms of HIV-1 infected Elite Controllers. EBioMedicine 27:40-50. [PMID: 29269040] [Featured article]

Plasma soluble factor following two decadesprolonged suppressive antiretroviral therapy in HIV-1 positive males: A cross-sectional study. Medicine (Baltimore), 97(5):e9759. [PMID: 29384862]

Ex vivo antiretroviral potency of newer integrase strand transfer inhibitors cabotegravir and bictegravir in HIV-1 non-B subtypes AIDS 32(4):469-476.[PMID: 29239896]

Pretreatment drug resistance in a large countrywide Ethiopian HIV-1C cohort: a comparison of Sanger and high-throughput sequencing. Sci Rep. 2018 May 15;8(1):7556. [PMID: 29765082]

Analyses of HIV-1 integrase sequences prior toSouth African national HIV-treatment program and available of integrase inhibitors in Cape Town, South Africa. Sci Rep. 2018 Mar 16;8(1):4709. doi: 10.1038/s41598-018-22914-5. [PMID: 29549274]

Phenotypic co-receptor tropism and Maraviroc sensitivity in HIV-1 subtype C from East Africa. Sci Rep. 2018 Feb 5;8(1):2363. [PMID: 29403064]

The microbial metabolite TMAO in 1 association with inflammation and microbial dysregulation in three HIV cohorts at various disease stages. AIDS 32(12):1589-1598.

Quantitative humoral profiling of the HIV-1 proteome in elite controllers and patients with very long-term efficient antiretroviral therapy.Sci Rep. 7(1):666. [PMID: 28386076]

Richer gut microbiota with distinct metabolic profile in HIV infected Elite Controllers. Sci RepJul 24;7(1):6269.[PMID:28740260]

Increased replication capacity following evolution of PYxE insertion in Gag-p6 is associated with enhanced virulence in HIV-1 subtype C from East Africa. J Med Virol. 89(1):106-111 [PMID: 27328744]

A high rate of HIV-1 acquisition post immigration among migrants in Sweden determined by a CD4 T-cell decline trajectory model. HIV Med. 18(9):677-684 [PMID:28444865]

Drug resistance testing through remote genotyping and predicted treatment options in Human Immunodeficiency Virus type 1 infected Tanzanian subjects failing first or second line antiretroviral therapy. PloS One Jun 5;12(6): e0178942.[PMID: 28582463]

Effect of therapy switch on time to second-line antiretroviral treatment failure in HIV-infected patients. PloS One Jul 20;12(7):e0180140. [PMID: 28727795]

Virological failure in patients with HIV-1 subtype C receiving antiretroviral therapy: an analysis of a prospective national cohort in Sweden. Lancet HIV3(4):e166-74 [PMID: 27036992]

Multiplexed next-generation sequencing and de novo assembly to obtain near full-length HIV-1 genome from plasma virus. J Virol Methods 236:98-104 [PMID: 27448822]

Global epidemiology of drug resistance after failure of WHO recommended first-line regimens for adult HIV-1 infection: a multicentre retrospective cohort study.Lancet Infect Dis 16(5):565-575 [PMID: 26831472]

Can HIV reverse transcriptase activity assay be a low cost alternative for viral load monitoring in resource-limited settings? BMJ Open, 6:e008795. [PMID: 26817634]

Phylogenetic analysis of Ethiopian HIV-1 subtype C near full-length genomes reveals high intra-subtype diversity and a strong geographical cluster.AIDS Res Hum Retroviruses 32(5):471-474. [PMID: 26881451]

Mutational heterogeneity in p6 Gag late assembly (L) domains in HIV-1 subtype C viruses from South Africa. AIDS Res Hum Retroviruses32(1):80-4. [PMID: 26413747]

Factors influencing the efficacy of rilpivirine on HIV-1 subtype C in low- and middle-income countries. J Antimicrob Chemother, 71(2):367-71.[PMID: 26518047]

Gut microbiota diversity predicts immune status in HIV-1 infection.AIDS 29(18):2409-18. [PMID: 26355675]

Subtype-independent near full-length HIV-1 genome sequencing and assembly to be used in large molecular epidemiological studies and clinical management. J Int AIDS Soc. 2015 Jun 25;18(1):20035. [PMID: 26115688]

Virological efficacy with first-line antiretroviral treatment in India: predictors of viral failure and evidence of viral resuppression.Trop Med Int Health. 20(11):1462-1472. [PMID: 26146863]

Performance of genotypic tools for prediction of tropism in HIV-1 subtype C V3 loop sequences.Intervirology. 2015 Jan 7;58 (1):1-5. [PMID: 25573618]

Cost-efficient HIV-1 drug resistance surveillance using multiplexed high throughput amplicon sequencing: Implications for use in low and middle-income countries. J Antimicrob Chemother, 69(12):3349-55. [PMID:25085657]

Novel tetra-peptide insertion in Gag p6 ALIX-binding motif in HIV-1 subtype C associated with protease inhibitor failure in Indian patients.AIDS; 28(15): 2319-22. [PMID: 25102091]

Temporal trends in the Swedish HIV-1 epidemic: Increase in non-Bsubtypes and recombinant forms over three decades. PLoS One, 9(6):e99390. doi: 10.1371/journal.pone.0099390. [*Equal contribution] [PMID: 24922326].

Limited evolution but increasing trends of primary non-nucleoside reverse transcriptase inhibitors resistance mutations in therapy naive HIV-1 infected individuals in India. AntivirTher, 19(8): 813-818.[PMID: 24699043]

Phylogenetic characterization of six full-length HIV-1 subtype C molecular clones from three patients: Identification of rare subtype C strains containing two NF-κB motifs in the long terminal repeat. AIDS Res Hum Retroviruses. 30(6): 586-591. [*Equal contribution] [PMID:24387762]

Effect of mobile telephone reminders on treatment outcome in HIV: evidence from a randomised controlled trial in India.BMJ 24;349:g5978. doi: 10.1136/bmj.g5978. [PMID:25742320]

The gp120 protein is a second determinant of increased neurovirulence of Southern African HIV-1C isolates compared to Indian HIV-1C isolates. PLoS One,2014 Sep 4;9(9):e107074. doi: 10.1371/journal.pone.0107074. [PMID: 25188269]

Genetic factors associated with slow progression of HIV among perinatally-infected Indian children. Indian Pediatr. 2014 Oct 8;51(10):801-803. [With Editorial Commentary] [PMID: 25362010]

Genetic architecture of HIV type 1 Nef and Tat from HLA-B57-typed long-term survivors in an Indian cohort of perinatally HIV-infected children. AIDS Res Hum Retroviruses. 29(12):1613-6. [PMID: 24020900]

Human APOBEC3G-mediated hypermutation is associated with antiretroviral therapy failure in HIV-1 subtype C- infected individuals. J Int AIDS Soc16:18472. doi: 10.7448/IAS.16.1.18472. [PMID: 23443042]

Long-term efficacy of first line antiretroviral therapy in Indian HIV-1 infected patients: A longitudinal cohort study. PLoS ONE8(1): e55421. doi:10.1371/journal.pone.0055421. [PMID:23383185]

HIV-1 co-receptor tropism in India: increasing proportion of X4-tropism in subtype C strains over two decades. J Acquir Immune DeficSyndr. 65(4):397-404.[PMID:24189148]

Clade C HIV-1 isolates circulating in Southern Africa exhibit a greater frequency of dicysteine motif-containing Tat variants than those in Southeast Asia and cause increased neurovirulence. Retrovirology 10:61. doi: 10.1186/1742-4690-10-61. [PMID: 23758766]

High concordance of genotypic co-receptor prediction in plasma-viral RNA and pro-viral DNA of HIV-1 subtype C virus: implications in use of whole-blood DNA in resource-limited settings. J Antimicrob Chemother 68(9):2003-2006. [PMID: 23633683]

Effectiveness of first-line antiretroviral therapy and acquired drug resistance among HIV-1-infected children in India. Pediatr Infect Dis J 32: e227–e229. [PMID: 23249907]

High viremia and low level of transmitted drug resistance in anti-retroviral therapy-naïve perinatally-infected children and adolescents with HIV-1 subtype C infection. BMC Infec DisNov 22;12(1):317. [PMID: 23171203]

Molecular epidemiology of HIV-1 subtypes in India: Origin and evolutionary history of the predominant subtype C. PLoS ONE7(6): e39819.doi:10.1371/journal.pone.0039819. [PMID:22768132]

Dried blood spot HIV-1 RNA quantification: A useful tool for viral load monitoring among HIV-infected individuals in India. Indian J Med Res, 136; 956-962. [PMID:23391790]

Genetic characterization of HIV-1 Tat exon 1 from a southern Indian clinical cohort: identification of unique epidemiological signature residues. AIDS Res Hum Retroviruses 28(9): 1152-1156. [PMID: 22236201]

Higher prevalence of predicted X4-tropic strains in perinatally-infected older children with HIV-1 subtype C in India. J Acquir Immune DeficSyndr. 59(4):347-353. [PMID: 22107818]

Multiple NF-κB sites in HIV-1 subtype C LTR confer superior magnitude of transcription and thereby the enhanced viral predominance .J Biol Chem, 28;287(53):44714-35.[PMID: 23132857]

Selection of non-nucleoside reverse transcriptase inhibitor-associated mutations in HIV-1 subtype C: evidence of etravirine cross-resistance. AIDS 25:1123–1126. [PMID:21505320]

Characterizations of HIV-1 subtype C protease gene: selection of L63P mutation in protease inhibitor-naive Indian patients. AIDS Res Hum Retroviruses 27(11):1249-53. [PMID:21453185]

Design of a randomized trial to evaluate the influence of mobile phone reminders on adherence to first line antiretroviral treatment in South India – the HIVIND study protocol. BMC Med Res Methodol. Mar 26;10(1):25. [PMID:20346136]

Naturally occurring polymorphisms and primary drug resistance profile among antiretroviral-naïve individuals in Bangalore, India. AIDS Res Hum Retroviruses 26(10): 1097-1101. [PMID:20836706]

Co-receptor tropism prediction among 1045 Indian HIV-1 subtype C sequences: Therapeutic implications for India. AIDS Res. Ther. 7:24 (21 July 2010) doi:10.1186/1742-6405-7-24. [PMID:20646329]

Diversity of HIV-1 Long Terminal Repeat (LTR) Sequences following Mother-to-Child Transmission in North India. AIDS Res Hum Retroviruses 26(12): 1299-1305. [PMID: 20929348]

Genetic and functional analysis of HIV-1 Rev Responsive Element (RRE) sequences from North-India. AIDS Res. Ther. 7:28. [PMID:20682034]

Genetic analysis of HIV-1 Circulating Recombinant Form 02_AG, B and C subtype-specific envelope sequences from Northern India and their predicted co-receptor usage. AIDS Res. Ther. 2009, 6:28. doi:10.1186/1742-6405-6-28. [PMID:19954551]

Genetic and functional characterization of HIV-1 VprC variants from North India: Presence of unique recombinants with mosaic genomes from B, C and D subtypes within the ORF of Vpr. J. Gen. Virol. ; 90: 2768 – 2776. [*Equal Contributions] [PMID:19605589]

Novel HIV-1 Long Terminal Repeat (LTR) sequences of Subtype B and mosaic inter subtype B/C Recombinants in North India. Arch. Virol. 153(10): 1961-1966. [*Equal Contributions] [PMID: 18818865]