John M Murray

Summary

Affiliation: University of New South Wales
Country: Australia

Publications

  1. pmc Explaining the determinants of first phase HIV decay dynamics through the effects of stage-dependent drug action
    James B Gilmore
    School of Mathematics and Statistics, University of New South Wales, Sydney, New South Wales, Australia
    PLoS Comput Biol 9:e1002971. 2013
  2. pmc Application of a case-control study design to investigate genotypic signatures of HIV-1 transmission
    Talia M Mota
    Department of Microbiology and Immunology, University of Melbourne, Parkville, VIC 3010, Australia
    Retrovirology 9:54. 2012
  3. pmc Genotype 1 hepatitis C virus envelope features that determine antiviral response assessed through optimal covariance networks
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW, Australia
    PLoS ONE 8:e67254. 2013
  4. doi Integrated HIV DNA accumulates prior to treatment while episomal HIV DNA records ongoing transmission afterwards
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, New South Wales, Australia
    AIDS 26:543-50. 2012
  5. pmc Cassette deletion in multiple shRNA lentiviral vectors for HIV-1 and its impact on treatment success
    Glen J McIntyre
    Johnson and Johnson Research Pty Ltd, Level 4 Biomedical Building, Australian Technology Park, Eveleigh, NSW 1430, Australia
    Virol J 6:184. 2009
  6. pmc In silico modeling indicates the development of HIV-1 resistance to multiple shRNA gene therapy differs to standard antiretroviral therapy
    Tanya Lynn Applegate
    Johnson and Johnson Research Pty Ltd, Australian Technology Park, Eveleigh, NSW, Australia
    Retrovirology 7:83. 2010
  7. ncbi Rapidly ageing HIV epidemic among men who have sex with men in Australia
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW 2052, Australia
    Sex Health 6:83-6. 2009
  8. ncbi HIV dynamics and integrase inhibitors
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    Antivir Chem Chemother 19:157-64. 2009
  9. doi Mathematical modelling of the impact of haematopoietic stem cell-delivered gene therapy for HIV
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    J Gene Med 11:1077-86. 2009
  10. pmc Timing of the components of the HIV life cycle in productively infected CD4+ T cells in a population of HIV-infected individuals
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney 2052, NSW, Australia
    J Virol 85:10798-805. 2011

Collaborators

Detail Information

Publications39

  1. pmc Explaining the determinants of first phase HIV decay dynamics through the effects of stage-dependent drug action
    James B Gilmore
    School of Mathematics and Statistics, University of New South Wales, Sydney, New South Wales, Australia
    PLoS Comput Biol 9:e1002971. 2013
    ..The level at which this slowing occurs is a better indicator of drug efficacy than the slope of the initial decay...
  2. pmc Application of a case-control study design to investigate genotypic signatures of HIV-1 transmission
    Talia M Mota
    Department of Microbiology and Immunology, University of Melbourne, Parkville, VIC 3010, Australia
    Retrovirology 9:54. 2012
    ..A case-control study design was used to measure the prevalence of these variables between subtype B and C transmission sequences and frequency-matched randomly-selected sequences derived from chronically infected controls...
  3. pmc Genotype 1 hepatitis C virus envelope features that determine antiviral response assessed through optimal covariance networks
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW, Australia
    PLoS ONE 8:e67254. 2013
    ..Optimal networks based on covarying aa pairs in HCV envelope can indicate features that are associated with failure or success to antiviral therapy. ..
  4. doi Integrated HIV DNA accumulates prior to treatment while episomal HIV DNA records ongoing transmission afterwards
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, New South Wales, Australia
    AIDS 26:543-50. 2012
    ..We investigated the dynamics of HIV RNA and HIV DNA levels after the commencement of raltegravir-based antiretroviral therapy (ART) in primary (PHI) and chronically HIV-infected (CHI) individuals (the PINT study)...
  5. pmc Cassette deletion in multiple shRNA lentiviral vectors for HIV-1 and its impact on treatment success
    Glen J McIntyre
    Johnson and Johnson Research Pty Ltd, Level 4 Biomedical Building, Australian Technology Park, Eveleigh, NSW 1430, Australia
    Virol J 6:184. 2009
    ..However, there is evidence that repeated expression cassettes delivered via lentiviral vectors may be subject to recombination-mediated repeat deletion of 1 or more cassettes...
  6. pmc In silico modeling indicates the development of HIV-1 resistance to multiple shRNA gene therapy differs to standard antiretroviral therapy
    Tanya Lynn Applegate
    Johnson and Johnson Research Pty Ltd, Australian Technology Park, Eveleigh, NSW, Australia
    Retrovirology 7:83. 2010
    ..It is now clear that multiple shRNAs will likely be required to suppress infection and prevent the emergence of resistant virus...
  7. ncbi Rapidly ageing HIV epidemic among men who have sex with men in Australia
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW 2052, Australia
    Sex Health 6:83-6. 2009
    ..To date the rate of ageing has been unquantified, giving rise to uncertainty in the treatment emphasis and burden in this population...
  8. ncbi HIV dynamics and integrase inhibitors
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    Antivir Chem Chemother 19:157-64. 2009
    ..Investigation of HIV RNA and HIV DNA levels with an INI will provide better understanding of how these components are generated and maintained under antiretroviral therapy...
  9. doi Mathematical modelling of the impact of haematopoietic stem cell-delivered gene therapy for HIV
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    J Gene Med 11:1077-86. 2009
    ..Gene therapy represents a new treatment paradigm for HIV that is potentially delivered by a safe, once-only therapeutic intervention...
  10. pmc Timing of the components of the HIV life cycle in productively infected CD4+ T cells in a population of HIV-infected individuals
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney 2052, NSW, Australia
    J Virol 85:10798-805. 2011
    ..The mean estimated half-life of plasma virions was 5 min, significantly shorter than previous estimates...
  11. ncbi Antiretroviral therapy with the integrase inhibitor raltegravir alters decay kinetics of HIV, significantly reducing the second phase
    John M Murray
    National Centre in HIV Epidemiology and Clinical Research, Sydney, NSW 2052, Australia
    AIDS 21:2315-21. 2007
    ..To date, there have been no reports investigating the potential for differential effects on viral dynamics with integrase inhibitors relative to current antiretroviral drugs...
  12. doi Increasing HIV diagnoses in Australia among men who have sex with men correlated with the growing number not taking antiretroviral therapy
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW 2052, Australia
    Sex Health 8:304-10. 2011
    ..New HIV diagnoses have also been younger than the average age of those living with HIV. We investigated the degree to which several risk factors could explain this rise in notifications and the younger age profile...
  13. ncbi The half-life of hepatitis B virions
    John M Murray
    School of Mathematics, University of New South Wales, Sydney 2052, NSW, Australia
    Hepatology 44:1117-21. 2006
    ..In conclusion, we find the half-life of HBV virions is approximately 4 hours, significantly shorter than current estimates of 1 day. This new value is consistent with virion half-life estimates for HIV and hepatitis C virus...
  14. ncbi Naive T cells are maintained by thymic output in early ages but by proliferation without phenotypic change after age twenty
    John M Murray
    School of Mathematics, University of NSW, Sydney, Australia
    Immunol Cell Biol 81:487-95. 2003
    ..7 year half-life of the productive thymus so that by age 55 only 5% of naive production arises from thymic export...
  15. ncbi The impact of behavioural changes on the prevalence of human immunodeficiency virus and hepatitis C among injecting drug users
    John M Murray
    School of Mathematics, University of New South Wales, Sydney NSW 2052, Australia
    Int J Epidemiol 32:708-14. 2003
    ..The impact that different needle-sharing behaviour and drug injecting use may have on the future levels of these viruses is uncertain...
  16. ncbi The effect of heterogeneity on optimal regimens in cancer chemotherapy
    J M Murray
    School of Mathematics, University of New South Wales, Sydney, NSW 2052, Australia
    Math Biosci 185:73-87. 2003
    ..This has the effect of complicating the calculation of optimal regimens in a clinical setting, and may explain why results in experimental oncology fail to carry over to clinical oncology...
  17. ncbi A model of primary HIV-1 infection
    J M Murray
    School of Mathematics, University of New South Wales, Sydney, Australia
    Math Biosci 154:57-85. 1998
    ..As less memory cells are produced as a result then this compartment decreases and hence so do naive numbers through less reversion of memory cells to the naive phenotype...
  18. pmc HIV DNA subspecies persist in both activated and resting memory CD4+ T cells during antiretroviral therapy
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW, Australia
    J Virol 88:3516-26. 2014
    ..These results provide insights into the interrelatedness of cell activation and reservoir maintenance, with implications for the design of therapeutic strategies targeting HIV persistence...
  19. doi Evolution of CD4+ T cell count in HIV-1-infected adults receiving antiretroviral therapy with sustained long-term virological suppression
    Helen Byakwaga
    National Centre in HIV Epidemiology and Clinical Research, University of New South Wales, 376 Victoria Street, Darlinghurst, NSW 2010, Australia
    AIDS Res Hum Retroviruses 25:756-76. 2009
    ..Our results point to an advantage to commencing ART at higher CD4+ T cell strata. These data should be considered when estimating the optimal time to initiate ART...
  20. pmc Short communication: HIV blips while on antiretroviral therapy can indicate consistently detectable viral levels due to assay underreporting
    John M Murray
    1 School of Mathematics and Statistics, University of New South Wales, Sydney, NSW, Australia
    AIDS Res Hum Retroviruses 29:1621-5. 2013
    ..The high Amplicor assay error rate around this level implies that viral blips underrepresent pVL being more consistently above the LLOQ. Activation of latently infected cells is less likely to contribute to this phenomenon...
  21. doi Impact of treatment with raltegravir during primary or chronic HIV infection on RNA decay characteristics and the HIV viral reservoir
    Kersten K Koelsch
    The Kirby Institute, University of New South Wales, Sydney, Australia
    AIDS 25:2069-78. 2011
    ..In most patients, rebound upon treatment cessation is prompt. We assessed whether early treatment with raltegravir can impact on the formation of the viral reservoir...
  22. pmc The majority of HIV type 1 DNA in circulating CD4+ T lymphocytes is present in non-gut-homing resting memory CD4+ T cells
    Kristin McBride
    1 The Kirby Institute for Infection and Immunity in Society, University of New South Wales, Sydney, Australia
    AIDS Res Hum Retroviruses 29:1330-9. 2013
    ..Our investigations showed that the majority of both total and integrated HIV-1 DNA was found within non-gut-homing resting CD4(+) T cells...
  23. ncbi Significant reduction in HIV prevalence according to male circumcision intervention in sub-Saharan Africa
    Gregory J Londish
    School of Mathematics and Statistics, University of New South Wales, Sydney 2052 NSW, Australia
    Int J Epidemiol 37:1246-53. 2008
    ..The exact benefits of this intervention are uncertain. Moreover if MC is not feasible for the whole male population, which groups should be targeted?..
  24. doi Minimal impact of circumcision on HIV acquisition in men who have sex with men
    Gregory J Londish
    School of Mathematics and Statistics, University of New South Wales, Sydney, NSW 2052, Australia
    Sex Health 7:463-70. 2010
    ..We examined the potential impact of circumcision on an HIV epidemic within a population of MSM...
  25. doi Optimal targeting of Hepatitis C virus treatment among injecting drug users to those not enrolled in methadone maintenance programs
    Irmgard Zeiler
    Drug Policy Modelling Program, National Drug and Alcohol Research Centre, University of New South Wales, Sydney, NSW 2052, Australia
    Drug Alcohol Depend 110:228-33. 2010
    ..This work used mathematical modelling to explore effective policy for Hepatitis C virus (HCV) treatment in Australia in the context of methadone maintenance treatment (MMT)...
  26. doi T-lymphocyte perturbation following large-scale apheresis and hematopoietic stem cell transplantation in HIV-infected individuals
    Borislav Savkovic
    School of Mathematics and Statistics, University of New South Wales, Sydney 2052, Australia
    Clin Immunol 144:159-71. 2012
    ..5% of the pool of CD4+ T lymphocytes that traffic to PB...
  27. pmc Dynamics of hepatitis B virus clearance in chimpanzees
    John M Murray
    School of Mathematics, University of New South Wales, Sydney NSW 2052, Australia
    Proc Natl Acad Sci U S A 102:17780-5. 2005
    ....
  28. doi The burden of HIV-associated neurocognitive impairment in Australia and its estimates for the future
    Lucette A Cysique
    Brain Sciences, University of New South Wales, Sydney, NSW 2052, Australia
    Sex Health 8:541-50. 2011
    ..There are currently no estimates of the future burden of neurocognitive disease in this population...
  29. pmc The prevalence of sexually transmitted infections in Papua New Guinea: a systematic review and meta-analysis
    Andrew Vallely
    National Centre in HIV Epidemiology and Clinical Research, University of New South Wales, Sydney, Australia
    PLoS ONE 5:e15586. 2010
    ..As sexually transmitted infections (STIs) may be important co-factors in HIV transmission nationally, it is timely to conduct a systematic review of STI prevalences to inform national policy on sexual health and HIV/STI prevention...
  30. doi HIV treatment as prevention in a developed country setting: the current situation and future scenarios for Australia
    John M Murray
    School of Mathematics and Statistics, and The Kirby Institute, University of New South Wales, Sydney, Australia
    J Acquir Immune Defic Syndr 64:409-16. 2013
    ..We investigated the current success of early HIV detection in Australia and the likely effectiveness of Treatment as Prevention...
  31. pmc Stochastic model of in-vivo X4 emergence during HIV infection: implications for the CCR5 inhibitor maraviroc
    Borislav Savkovic
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    PLoS ONE 7:e38755. 2012
    ..These results underscore the clinical importance for careful selection of BT when CCR5 blockers are administered in-vivo...
  32. pmc A Quantitative Comparison of Anti-HIV Gene Therapy Delivered to Hematopoietic Stem Cells versus CD4+ T Cells
    Borislav Savkovic
    School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
    PLoS Comput Biol 10:e1003681. 2014
    ..therapy delivery to CD34+ HSC will result in better outcomes than delivery to CD4+T cells, and 2.) a greater impact of gene therapy will be observed if G+ CD4+T cells exhibit reduced levels of bystander apoptosis over G- CD4+T cells. ..
  33. doi High prevalence and incidence of HIV, sexually transmissible infections and penile foreskin cutting among sexual health clinic attendees in Papua New Guinea
    Andrew Vallely
    The Kirby Institute, University of New South Wales, Darlinghurst, NSW 2010, Australia
    Sex Health 11:58-66. 2014
    ..High retention figures suggest that this population may be suitable for future interventions research and clinical trials. ..
  34. ncbi Findings regarding reduced prevalence with hepatitis C treatment are still valid: A reply to Vickerman et al
    John M Murray
    School of Mathematics and Statistics, University of New South Wales, Sydney 2052, NSW, Australia National Centre in HIV Epidemiology and Clinical Research, University of New South Wales, Sydney 2052, NSW, Australia
    Drug Alcohol Depend 113:86-7. 2011
    ..Our original findings suggest that policy should preferentially direct treatment to current injectors...
  35. doi Virion half-life in chronic hepatitis B infection is strongly correlated with levels of viremia
    Maura Dandri
    Department of Medicine, University Medical Centre Hamburg Eppendorf, Hamburg, Germany
    Hepatology 48:1079-86. 2008
    ..Notably, the lack of correlation between virion half-life and viremia in mice indicated that immune components significantly accelerate virion clearance rates in individuals with low titers...
  36. ncbi Virologic determinants of success after structured treatment interruptions of antiretrovirals in acute HIV-1 infection
    Sharon R Lewin
    Infectious Diseases Unit, Alfred Hospital, Melbourne, Australia
    J Acquir Immune Defic Syndr 47:140-47. 2008
    ..Commencing ARVs during primary HIV-1 infection (PHI) may limit the size of the latent pool and lead to improved control of viral replication during structured treatment interruption (STI)...
  37. ncbi Impaired intrahepatic hepatitis B virus productivity contributes to low viremia in most HBeAg-negative patients
    Tassilo Volz
    Department of Medicine, University Hospital Hamburg Eppendorf, Hamburg, Germany
    Gastroenterology 133:843-52. 2007
    ....
  38. ncbi Changing transmission fitness of drug-resistant human immunodeficiency virus against a background of evolving antiretroviral therapy
    John M Murray
    J Infect Dis 188:1258; author reply 1258-9. 2003
  39. ncbi Altered RNA editing of serotonin 5-HT2C receptor induced by interferon: implications for depression associated with cytokine therapy
    Weidong Yang
    The Wistar Institute, 3601 Spruce Street, Philadelphia, PA 19104, USA
    Brain Res Mol Brain Res 124:70-8. 2004
    ..Our results support the hypothesis that 5-HT(2C)R mRNA editing has causative relevance in the pathophysiology of depression associated with cytokine therapy...