Dr Nitin Saksena - Westmead Millennium Institute

Dr Nitin SaksenaT: +61 2 9845 9119F: +61 2 9845 9100E: nitin.saksena@sydney.edu.au20112011 - 2010 - 2009 - 2008 - 2007 - 2006 - 2005 - 2004 - 2003 - 2002 - 2001 - 2000 -Wang, B., Dwyer, D., Soedjono, M., Shi, H., Matlho, K., Ratnamohan, M., Blyth, C., McPhie, K.,Cunningham, A., Saksena, N. (2011), Evidence of the circulation of pandemic influenza (H1N1)2009 with D222D/G/N/S hemagglutinin polymorphisms during the first wave of the 2009influenza pandemic. Journal of clinical virology : the official publication of the Pan AmericanSociety for Clinical Virology. 52, 304-6. [Abstract]Wu, J., Dwyer, D., Dyer, W., Yang, Y., Wang, B., Saksena, N. (2011), Genome-wide analysis ofprimary CD4+ and CD8+ T cell transcriptomes shows evidence for a network of enrichedpathways associated with HIV disease. Retrovirology. 8, 18. [Abstract]Wang, B., Steain, M., Dwyer, D., Cunningham, A., Saksena, N. (2011), Synthetic longoligonucleotides to generate artificial templates for use as positive controls in molecular assays:drug resistance mutations in influenza virus as an example. Virology journal. 8, 405. [Abstract]2010Saksena NK, Bin Wang, Li Zhou, Maly Soedjono, Yung Shwen Ho and Viviane Conceicao. HIVreservoirs in vivo and new strategies for possible eradication of HIV from the reservoir sites. InPress, Journal of HIV and Palliative care, Dove Press. 2, 103-122: 2010.Westmead Millennium Institute

Lau KA, Bin Wang, Monica Miranda-Saksena, Ross Boadle, Adeeba Kamarulzaman, Kee-Peng Ngand Nitin K. Saksena. Evidence for possible biological advantages of the newly emerging HIV-1circulating recombinant form (CRF) from Malaysia - CRF33_01B in comparison to its progenitors-CRF01_AE and subtype B. In Press- Current HIV Research, USA. 1, 8(3): 159-171; 2010. [Abstract]Wightman F, Ajantha Solomon, Gabriela Khoury, Justin Green, Lachlan Gray, Paul R Gorry, NitinK. Saksena, Yung Shwen Ho, Jennifer Hoy, Suzanne M Crowe, Paul U Cameron Sharon R Lewin.Both CD31-positive and CD31-negative naive CD4 T-cells are persistent HIV-infected reservoirs inindividuals receiving antiretroviral therapy. Journal of Infectious Diseases (In Press) 2010.[Abstract]Zhou L, Eve Diefenbach, Ben Crossett, Rejane Rua, Bin Wang, Amit Kapur, Bruce J. Brew andNitin K. Saksena. First evidence of overlaps between HIV-Associated Dementia (HAD) and nonviralneurodegenerative diseases: Proteomic analysis of the frontal cortex from HIV+ patientswith and without dementia. Molecular Neurodegeneration (In Press) 2010. [Abstract]Zhou L, Rua R, Ng T, Vongrad V, Ho YS, Geczy C, Hsu K, Brew BJ, Saksena NK.Evidence forpredilection of macrophage infiltration patterns in the deeper midline and mesial temporalstructures of the brain uniquely in patients with HIV-associated dementia. BMC InfectiousDiseases;9:192. 2010. [Abstract]Wade J, Sterjovski J, Gray L, Roche M, Chiavaroli L, Ellett A, Jakobsen MR, Cowley D, Pereira CdaF, Saksena N, Wang B, Purcell DF, Karlsson I, Fenyö EM, Churchill M, Gorry PR. Enhanced CD4+cellular apoptosis by CCR5-restricted HIV-1 envelope glycoprotein variants from patients withprogressive HIV-1 infection. Virology. 2010 Jan 20;396(2):246-55. Wang B, Dwyer DE, Blyth CC, Soedjono M, Shi H, Kesson A, Ratnamohan M, McPhie K,Cunningham AL, Saksena NK Detection of the rapid emergence of the H275Y mutationassociated with oseltamivir resistance in severe pandemic influenza virus A/H1N1 09 infections.Antiviral Res. 2010 Jul;87(1):16-21. Epub 2010 Apr 10. [Abstract] Yoo, P., Shwen Ho, Y., Ng, J., Charleston, M., Saksena, N., Yang, P., Zomaya, A. (2010),Hierarchical kernel mixture models for the prediction of AIDS disease progression using HIVstructural gp120 profiles. BMC Genomics. 11, S22. [Abstract]2009 Gray, L., M. Roche, M. J. Churchill, J. Sterjovski, A. Ellett, P. Poumbourios, S. Sherieff, B. Wang, N.Saksena, D. F. Purcell, S. Wesselingh, A. L. Cunningham, B. J. Brew, D. Gabuzda and P. R. Gorry."Tissue-specific sequence alterations in the human immunodeficiency virus type 1 envelopefavoring CCR5 usage contribute to persistence of dual-tropic virus in the brain." J Virol 83(11):5430-5441.2009. Saksena, N., J. Q. Wu, K. A. Lau, L. Zhou, M. Soedjono and B. Wang. CD8 Antiviral Soluble Factorsand Human Immunodefieciency Virus (HIV) Control. M. A. Ph.D, Bentham Books (BentamScience Publishers): 11-34. 2009.Westmead Millennium Institute

Jing Qin Wu, Wayne B. Dyer, Jeremy Chrisp, Larissa Belov, Bin Wang and Nitin K. Saksena.Longitudinal Microarray Analysis of Cell Surface Antigens on Peripheral Blood Mononuclear Cellsfrom HIV+ Individuals on Highly Active Antiretroviral Therapy. Retrovirology, 5: 24 2008.[Abstract]2007 Saksena NK, Rhodes B, Wang B and Soriano V. Elite HIV controllers: Myth or a reality. (Review)AIDS Reviews 9: 195-207: 2007. [Abstract] Lau KA, Wang B and Saksena NK. Emerging trends of HIV epidemiology in Asia. (Review) AIDSReviews 9; 218-229: 2007. [Abstract] Lau K, Wang B, Kamarulzaman A, Ng KP, and Saksena NK. Near full-length sequence analysis ofHIV-1 CRF33_01B/B Intersubtype recombinant from Malaysia: Evidence of secondaryrecombinant derived from CRF33_01B. AIDS Research & Human Retroviruses 23, 1139-1143;2007. [Abstract] Wang YM, Wang B, Dyer WB, Lachireddy K, Peng NG and Saksena NK. Evidence forpredominance of CCR5-using HIV-1 strains during HAART. Current HIV Research 5, 221-234,2007. [Abstract] Wang YM, Dyer WB, Workman, C, Wang B, Ng KP, Lachireddy K, Chew CB, Sullivan J and SaksenaNK. Drug resistance and viral evolution in plasma and peripheral blood cells during structuredtreatment interruption (STI) and non-interrupted HAART. Current HIV Research 2, 235-250,2007. [Abstract] Wang B, Lau KA, Ong LY, Shah M, Steain MC, Foley B, Dwyer DE, Chew CB, Kamarulzaman A, NgKP and Saksena NK. Complex patterns of the HIV-1 epidemic in Kuala Lumpur, Malaysia:Evidence for expansion of circulating recombinant form CRF33_01B and detection of multipleother recombinants. Virology 367, 388-397; 2007. [Abstract] Sterjovski J, Churchill MJ, Ellett A, Gray LR, Roche MJ, Dunfee RL, Purcell DF, Saksena N, Wang B,Sonza S, Wesselingh SL, Karlsson I, Fenyo EM, Gabuzda D, Cunningham AL, Gorry PR. Asn 362 ingp120 contributes to enhanced fusogenicity by CCR5-restricted HIV-1 envelope glycoproteinvariants from patients with AIDS. Retrovirology. Dec 12;4(1):89 [Epub ahead of print] 2007. Wu JQ, Wang B, Belov L, Chrisp J, Learmont J, Dyer WB, Zaunders J, Cunningham AL, Dwyer DE,Saksena NK. Antibody microarray analysis of cell surface antigens on CD4+ and CD8+ T cells fromHIV+ individuals correlates with disease stages. Retrovirology. Nov 26;4(1):83 [Epub ahead ofprint] 2007. Sivakumaran H, Wang B, Gill MJ, Beckholdt B, Saksena NK, Harrich D. Functional relevance ofnonsynonymous mutations in the HIV-1 tat gene within an epidemiologically-linked transmissioncohort. Virology J. Oct 25;4(1):107 [Epub ahead of print] 2007.2006Westmead Millennium Institute

Arriaga, M, Carr, J, Li, P, Wang, B, Saksena, N. Interaction between HIV-1 and APOBEC3sub-family of proteins. Current HIV research. 2006; 4:401-9 [Abstract] Steain, M, Wang, B, Saksena, N. Analysis of HIV-1 sequences vertically transmitted toinfants in Kisumu, Kenya. Journal of clinical virology : the official publication of the PanAmerican Society for Clinical Virology. 2006; 36:298-302 [Abstract] Potter, S, Lemey, P, Dyer, W, Sullivan, J, Chew, C, Vandamme, A, Dwyer, D, Saksena, N.Genetic analyses reveal structured HIV-1 populations in serially sampled T lymphocytesof patients receiving HAART. Virology. 2006; 348:35-46 [Abstract] Gray, L, Churchill, M, Keane, N, Sterjovski, J, Ellett, A, Purcell, D, Poumbourios, P, Kol, C,Wang, B, Saksena, N, Wesselingh, S, Price, P, French, M, Gabuzda, D, Gorry, P. Geneticand functional analysis of R5X4 human immunodeficiency virus type 1 envelopeglycoproteins derived from two individuals homozygous for the CCR5 Delta 32 allele.Journal of Virology. 2006; 80:3684-3691 [Abstract] Verity, E, Williams, L, Haddad, D, Choy, V, O'Loughlin, C, Chatfield, C, Saksena, N,Cunningham, A, Gelder, F, McPhee, D. Broad neutralization and complement-mediatedlysis of HIV-1 by (PE)HRG214, a novel caprine anti-HIV-1 polyclonal antibody. Aids. 2006;20:505-515 [Abstract] Shah, M, Smit, T, Morgello, S, Tourtellotte, W, Gelman, B, Brew, B, Saksena, N. Env gp120sequence analysis of HIV type 1 strains from diverse areas of the brain shows preponderance ofCCR5 usage. AIDS research and human retroviruses. 2006; 22:177-81 [Abstract]2005Steain, M, Wang, B, Yang, C, Shi, Y, Nahlen, B, Lal, R, Saksena, N. HIV type 1 sequencediversity and dual infections in Kenya. AIDS research and human retroviruses. 2005;21:882-5 [Abstract]Cali, L, Wang, B, Mikhail, M, Gill, M, Beckthold, B, Salemi, M, Jans, D, Piller, S, Saksena,N. Evidence for host-driven selection of the HIV type 1 vpr gene in vivo during HIVdisease progression in a transfusion-acquired cohort. AIDS research and humanretroviruses. 2005; 21:728-33 [Abstract]Chew, C, Potter, S, Wang, B, Wang, Y, Shaw, C, Dwyer, D, Saksena, N. Assessment ofdrug resistance mutations in plasma and peripheral blood mononuclear cells at differentplasma viral loads in patients receiving HAART. Journal of clinical virology: the officialpublication of the Pan American Society for Clinical Virology. 2005; 33:206-16 [Abstract]Mikhail, M, Wang, B, Lemey, P, Beckholdt, B, Vandamme, A, Gill, M, Saksena, N. FulllengthHIV type 1 genome analysis showing evidence for HIV type 1 transmission from anonprogressor to two recipients who progressed to AIDS. AIDS research and humanretroviruses. 2005; 21:575-9 [Abstract]Westmead Millennium Institute

Wang, B, Potter, S, Lin, Y, Cunningham, A, Dwyer, D, Su, Y, Ma, X, Hou, Y, Saksena, N.Rapid and sensitive detection of severe acute respiratory syndrome coronavirus byrolling circle amplification. Journal of clinical microbiology. 2005; 43:2339-44 [Abstract] Saksena, N, Smit, T. HAART & the molecular biology of AIDS dementia complex. TheIndian journal of medical research. 2005; 121:256-69 [Abstract] Saksena, N, Wang, B, Steain, M, Yang, R, Zhang, L. Snapshot of HIV pathogenesis inChina. Cell research. 2005; 15:953-61 [Abstract] Mikhail, M, Wang, B, Lemey, P, Beckthold, B, Vandamme, A, Gill, M, Saksena, N. Role of viralevolutionary rate in HIV-1 disease progression in a linked cohort. Retrovirology. 2005;2:41 [Abstract]2004Smit, T, Brew, B, Tourtellotte, W, Morgello, S, Gelman, B, Saksena, N. Independentevolution of human immunodeficiency virus (HIV) drug resistance mutations in diverseareas of the brain in HIV-infected patients, with and without dementia, on antiretroviraltreatment. Journal of virology. 2004; 78:10133-48 [Abstract]Potter, S, Lemey, P, Achaz, G, Chew, C, Vandamme, A, Dwyer, D, Saksena, N. HIV-1compartmentalization in diverse leukocyte populations during antiretroviral therapy.Journal of leukocyte biology. 2004; 76:562-70 [Abstract]Potter, S, Chew, C, Steain, M, Dwyer, D, Saksena, N. Obstacles to successfulantiretroviral treatment of HIV-1 infection: problems & perspectives. The Indian journalof medical research. 2004; 119:217-37 [Abstract] Zaunders, J, Dyer, W, Wang, B, Munier, M, Miranda-Saksena, M, Newton, R, Moore, J,Mackay, C, Cooper, D, Saksena, N, Kelleher, A. Identification of circulating antigenspecificCD4+ T lymphocytes with a CCR5+, cytotoxic phenotype in an HIV-1 long-termnonprogressor and in CMV infection. Blood. 2004; 103:2238-47 [Abstract]2003Otake, K, Omoto, S, Yamamoto, T, Okuyama, H, Okada, H, Okada, N, Kawai, M, Saksena,N, Fujii, Y. HIV-1 Nef protein in the nucleus influences adipogenesis as well as viraltranscription through the peroxisome proliferator-activated receptors. AIDS (London,England). 2004; 18:189-98 [Abstract]Omoto, S, Ito, M, Tsutsumi, Y, Ichikawa, Y, Okuyama, H, Brisibe, E, Saksena, N, Fujii, Y. HIV-1 nefsuppression by virally encoded microRNA. Retrovirology. 2004; 1:44 [Abstract]Lemey, P, Salemi, M, Wang, B, Duffy, M, Hall, W, Saksena, N, Vandamme, A. Sitestripping based on likelihood ratio reduction is a useful tool fo evaluate the impact ofWestmead Millennium Institute

non-clock-like behavior on viral phylogenetic reconstructions. Fems Immunology AndMedical Microbiology. 2003; 39:125-132Lemey, P, Pybus, O, Wang, B, Saksena, N, Salemi, M, Vandamme, A. Tracing the originand history of the HIV-2 epidemic. Proceedings Of The National Academy Of Sciences OfThe United States Of America. 2003; 100(11):6588-6592Potter, S, Dwyer, D, Saksena, N. Diffential cellular distribution of HIV-1 drug resistance invivo: evidence for infection of CD8+ T cells during HAART. Virology. 2003; 305:339-352Wang, B, Mikhail, M, Dyer, W, Zaunders, J, Kelleher, A, Saksena, N. First demonstration of a lackof viral sequence evolution in a nonprogressor, defining replication-incompetent HIV-1infection. Virology. 2003; 312:135-1502002 Wang, B, Dyer, W, Zaunders, J, Mikhail, M, Sullivan, J, Williams, L, Haddad, D, Harris, G, Holt, J,Cooper, D, Miranda-Saksena, M, Boadle, R, Kelleher, A, Saksena, N. Comprehensive analyses of aunique HIV-1-infected nonprogressor reveal a complex association of immunobiologicalmechanisms in the context of replication-incompetent infection. Virology. 2002; 304:246-64 [Abstract]2001 Birch, M, Learmont, J, Dyer, W, Deacon, N, Zaunders, J, Saksena, N, Cunningham, A, Mills, J,Sullivan, J. An examination of signs of disease progression in survivors of the Sydney Blood BankCohort (SBBC). Journal of Virology. 2001; 27:273-277 Smit, T, Wang, B, Ng, T, Osborne, R, Brew, B, Saksena, N. Varied Tropism of HIV-1 IsolatesDerived from Different Regions of Adult Brain Cortex Discriminate between Patients with andwithout AIDS Dementia Complex (ADC); Evidence for Neurotropic HIV Variants. Virology. 2001;14(5):1070-10792000Wang, Y, Dyer, W, Workman, C, Wang, B, Sullivan, J, Saksena, N. Molecular evidence fordrug-induced compartmentalization of HIV-1 quasispecies in a patient with periodicchanges to HAART. AIDS (London, England). 2000; 14:2265-72 [Abstract]Haddad, D, Birch, C, Middleton, T, Dwyer, D, Cunningham, A, Saksena, N. Evidence forlate stage compartmentalization of HIV-1 resistance mutations between lymph nodeand peripheral blood mononuclear cells. AIDS. 2000; 14:2273-2281Westmead Millennium Institute

Wang, B, Lal, R, Dwyer, D, Miranda Held, M, Boadle, R, Cunningham, A, Saksena, N.Molecular and biological interactions between two HIV-1 strains from a coinfectedpatient reveal the first evidence in favor of viral synergism. Virology. 2000; 274:105-119 Wang, Y, Dyer, W, Workman, C, Wang, B, Sullivan, J, Saksena, N. Molecular evidence fordrug-induced compartmentalization of HIV-1 quasispecies in a patient with periodicchanges to HAART. AIDS. 2000; 14:2265-2272Westmead Millennium Institute