Publications: James, Ian

2013

Rojana-udomsart, A., Mitrpant, C., James, I., Witt, C., Needham, M., Day, T., Kiers, L., Corbett, A., Martinez, P., Wilton, S.D. and Mastaglia, F.L. (2013) Analysis of HLA-DRB3 alleles and supertypical genotypes in the MHC Class II region in sporadic inclusion body myositis. Journal of Neuroimmunology, 254 (1-2). pp. 174-177.

Phillips, E., Bartlett, J.A., Sanne, I., Lederman, M.M., Hinkle, J., Rousseau, F., Dunn, D., Pavlos, R., James, I., Mallal, S.A. and Haas, D.W. (2013) Associations between HLA-DRB1*0102, HLA-B*5801, and hepatotoxicity during initiation of nevirapine-containing regimens in South Africa. JAIDS Journal of Acquired Immune Deficiency Syndromes, 62 (2). e55-e57.

Qiu, W., Pham, K., James, I., Nolan, D., Castley, A., Christiansen, F.T., Czarniak, P., Luo, Y., Wu, J., Garlepp, M., Wilton, S., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2013) The influence of non-HLA gene polymorphisms and interactions on disease risk in a Western Australian multiple sclerosis cohort. Journal of Neuroimmunology . In Press.

2012

Nolan, D., Castley, A., Tschochner, M., James, I., Qiu, W., Sayer, D., Christiansen, F.T., Witt, C., Mastaglia, F., Carroll, W. and Kermode, A. (2012) Contributions of vitamin D response elements and HLA promoters to multiple sclerosis risk. Neurology, 79 (6). pp. 538-546.

Reeves, K.L., McKinnon, E.J. and James, I.R. (2012) Correction for founder effects in host-viral association studies via principal components. Statistical Applications in Genetics and Molecular Biology, 11 (4).

Rojana-udomsart, A., Bundell, C., James, I., Castley, A., Martinez, P., Christiansen, F., Hollingsworth, P. and Mastaglia, F. (2012) Frequency of autoantibodies and correlation with HLA-DRB1 genotype in sporadic inclusion body myositis (s-IBM): A population control study. Journal of Neuroimmunology, 249 (1-2). pp. 66-70.

Blais, M.-E., Zhang, Y., Rostron, T., Griffin, H., Taylor, S., Xu, K., Yan, H., Wu, H., James, I., John, M., Dong, T. and Rowland-Jones, S. L. (2012) High frequency of HIV mutations associated with HLA-C suggests enhanced HLA-C - Restricted CTL selective pressure associated with an AIDS-protective polymorphism. The Journal of Immunology, 188 (9). pp. 4663-4670.

Keane, N.M., Roberts, S.G., Almeida, C.M., Krishnan, T., Chopra, A., Demaine, E., Laird, R., Tschochner, M., Carlson, J.M., Mallal, S., Heckerman, D., James, I. and John, M. (2012) High-avidity, high-IFNγ-producing CD8 T-cell responses following immune selection during HIV-1 infection. Immunology and Cell Biology, 90 (2). pp. 224-234.

Rojana-udomsart, A., James, I., Castley, A., Needham, M., Scott, A., Day, T., Kiers, L., Corbett, A., Sue, C., Witt, C., Martinez, P., Christiansen, F. and Mastaglia, F. (2012) High-resolution HLA-DRB1 genotyping in an Australian inclusion body myositis (s-IBM) cohort: An analysis of disease-associated alleles and diplotypes. Journal of Neuroimmunology, 250 (1-2). pp. 77-82.

Shasha, D., Meseret, Y., Chopra, A., Cooper, D., James, I., Herrmann, S., Wolday, D., Maayan, S., Mallal, S. and John, M. (2012) Unique footprints of HLA class I on clade C HIV-1 in a cohort of Ethiopian patients. In: 19th Conference on Retroviruses and Opportunistic Infections (CROI 2012), 5 - 8 March, Seattle, Washington, USA.

Desmond, C.P., Gaudieri, S., James, I.R., Pfafferott, K., Chopra, A., Lau, G.K., Audsley, J., Day, C., Chivers, S., Gordon, A., Revill, P.A., Bowden, S., Ayres, A., Desmond, P.V., Thompson, A.J., Roberts, S. K., Locarnini, S.A., Mallal, S.A. and Lewin, S.R. (2012) Viral adaptation to host immune responses occurs in chronic hepatitis B virus (HBV) infection, and adaptation is greatest in HBV e antigen-negative disease. Journal of Virology, 86 (2). pp. 1181-1192.

Rajasuriar, R., Booth, D.R., Gouillou, M., Spelman, T., James, I., Solomon, A., Chua, K., Stewart, G., Deeks, S., Bangsberg, D.R., Muzoora, C., Cameron, P.U., Hunt, P., Martin, J. and Lewin, S.R. (2012) The role of SNPs in the α-chain of the IL-7R gene in CD4+ T-cell recovery in HIV-infected African patients receiving suppressive cART. Genes and Immunity, 13 (1). pp. 83-93.

2011

Pfafferott, K., Gaudieri, S., Ulsenheimer, A., James, I., Heeg, M., Nolan, D., John, M., Rauch, A., Mallal, S., Lucas, A.D., Klenerman, P., Diepolder, H.M. and Lucas, M. (2011) Constrained pattern of viral evolution in acute and early HCV infection limits viral plasticity. PLoS ONE, 6 (2). e16797.

Merani, S., Petrovic, D., James, I., Chopra, A., Cooper, D., Freitas, E., Rauch, A., di Iulio, J., John, M., Lucas, M., Fitzmaurice, K., McKiernan, S., Norris, S., Kelleher, D., Klenerman, P. and Gaudieri, S. (2011) Effect of immune pressure on hepatitis C virus evolution: Insights from a single-source outbreak. Hepatology, 53 (2). pp. 396-405.

Dong, T., Zhang, Y., Xu, K. Y., Yan, H., James, I., Peng, Y., Blais, M.-E., Gaudieri, S., Chen, X., Lun, W., Wu, H., Qu, W. Y., Rostron, T., Li, N., Mao, Y., Mallal, S., Xu, X., McMichael, A., John, M. and Rowland-Jones, S. L. (2011) Extensive HLA-driven viral diversity following a narrow-source HIV-1 outbreak in rural China. Blood, 118 (1). pp. 98-106.

Qiu, W., James, I., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2011) HLA-DR allele polymorphism and multiple sclerosis in Chinese populations: a meta-analysis. Multiple Sclerosis, 17 (4). pp. 382-388.

Hertz, T., Nolan, D., James, I., John, M., Gaudieri, S., Phillips, E.J., Huang, J.C., Riadi, G., Mallal, S. and Jojic, N. (2011) Mapping the Landscape of Host-Pathogen Coevolution: HLA Class I Binding and Its Relationship with Evolutionary Conservation in Human and Viral Proteins. Journal of Virology, 85 (3). pp. 1310-1321.

Qiu, W., Raven, S., James, I., Luo, Y., Wu, J., Castley, A., Christiansen, F.T., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2011) Spinal cord involvement in multiple sclerosis: A correlative MRI and high-resolution HLA-DRB1 genotyping study. Journal of the Neurological Sciences, 300 (1-2). pp. 114-119.

Morahan, G., Mehta, M., James, I., Chen, W.-M., Akolkar, B., Erlich, H. A., Hilner, J. E., Julier, C., Nerup, J., Nierras, C., Pociot, F., Todd, J. A. and Rich, S. S. (2011) Tests for genetic interactions in Type 1 Diabetes: Linkage and stratification analyses of 4,422 affected Sib-Pairs. Diabetes, 60 (3). pp. 1030-1040.

2010

John, M., Heckerman, D., James, I., Park, L.P., Carlson, J.M., Chopra, A., Gaudieri, S., Nolan, D., Haas, D.W., Riddler, S.A., Haubrich, R. and Mallal, S. (2010) Adaptive interactions between HLA and HIV-1: highly divergent selection imposed by HLA class I molecules with common supertype motifs. The Journal of Immunology, 184 (8). pp. 4368-4377.

Qiu, W., Wu, J-S, Castley, A., James, I., Joseph, J., Christiansen, F.T., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2010) Clinical profile and HLA-DRB1 genotype of late onset multiple sclerosis in Western Australia. Journal of Clinical Neuroscience, 17 (8). pp. 1009-1013.

James, I. (2010) Correlation estimation with bivariate censored data via alternating regressions. In: ASC 2010 Australian Statistical Conference Statistics in the West: Understanding our World., 6 - 10 December, Fremantle, Western Australia.

Wu, J.S., James, I., Wei, Q., Castley, A., Christiansen, F.T., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2010) Influence of HLA-DRB1 allele heterogeneity on disease risk and clinical course in a West Australian MS cohort: a high-resolution genotyping study. Multiple Sclerosis, 16 (5). pp. 526-532.

Qiu, W., Bundell, C., Wu, J.-S., Castley, A., James, I., Hollingsworth, P., Christiansen, F., Carroll, W.M., Mastaglia, F.L and Kermode, A.G (2010) Low level of systemic autoimmunity in Western Australian multiple sclerosis patients. Multiple Sclerosis, 16 (3). pp. 351-354.

Wu, J-S, Qiu, W., Castley, A., James, I., Mastaglia, F.L, Christiansen, F.T, Carroll, W.M, Joseph, J. and Kermode, A.G (2010) Modifying effects of HLA-DRB1 allele interactions on age at onset of multiple sclerosis in Western Australia. Multiple Sclerosis, 16 (1). pp. 15-20.

Wu, J-S, Qiu, W., Castley, A., James, I., Joseph, J., Christiansen, F.T., Carroll, W.M., Mastaglia, F.L. and Kermode, A.G. (2010) Presence of CSF oligoclonal bands (OCB) is associated with the HLA-DRB1 genotype in a West Australian multiple sclerosis cohort. Journal of the Neurological Sciences, 288 (1-2). pp. 63-67.

2009

McKinnon, E., Morahan, G., Nolan, D. and James, I. (2009) Association of MHC SNP genotype with susceptibility to type 1 diabetes: a modified survival approach. Diabetes, Obesity and Metabolism, 11 (Supp. 1). pp. 92-100.

Gaudieri, S., Rauch, A., James, I., Pfafferott, K., Baker, R., Cheng, W., McCaughan, G., Shackel, N., Jeffrey, G., Mollinson, L., Mallal, S., Furrer, H., Günthard, H., Hirschel, B., Klenerman, P., Nolan, D., John, M. and Lucas, M. (2009) Co-localisation of hepatitis C virus drug-resistant mutations and immune-driven adaptations: Relevance to therapy outcome. In: 19th Annual Combined Biological Sciences Meeting 2009, 28 August 2009, Perth, Western Australia.

Gaudieri, S., Rauch, A., James, I., Pfafferott, K., Cheng, W., McCaughan, G., Jeffrey, G., Mollison, L., Furrer, H., Günthard, H., Hirschel, B., Klenerman, P., Mallal, S., Nolan, D., John, M. and Lucas, M. (2009) Divergent adaptation of Hepatitis C virus genotypes to HLA-restricted immune pressure: relevance to HCV infection and vaccine design. In: 16th International Symposium on Hepatitis C Virus & Related Viruses, 3 - 7 October 2009, Nice, France.

Rauch, A., James, I., Pfafferott, K., Nolan, D., Klenerman, P., Cheng, W., Mollison, L., McCaughan, G., Shackel, N., Jeffrey, G.P., Baker, R., Freitas, E., Humphreys, I., Furrer, H., Günthard, H.F., Hirschel, B., Mallal, S., John, M., Lucas, M., Barnes, E. and Gaudieri, S. (2009) Divergent adaptation of hepatitis C virus genotypes 1 and 3 to human leukocyte antigen-restricted immune pressure. Hepatology, 50 (4). pp. 1017-1029.

Morahan, G., Mehta, M., McKinnon, E. and James, I. (2009) Effect of linkage status of affected sib-pairs on the search for novel type 1 diabetes susceptibility genes in the HLA complex. Diabetes, Obesity and Metabolism, 11 (Supp. 1). pp. 67-73.

Tschochner, M., Chopra, A., Maiden, T.M., Ahmad, I.F., James, I., Furrer, H., Günthard, H., Mallal, S., Rauch, A. and John, M. (2009) Effects of HIV type-1 immune selection on susceptability to integrase inhibitor resistance. Antiviral Therapy, 14 (7). pp. 953-964.

Tschochner, M., James , I., Almeida, C., Keane, N., Roberts, S., Bronke, C., Chopra, A., Maiden, T., Ahmad, I., Gaudieri, S., Mallal, S., Rauch, A., John, M., Furrer, H. and Günthard, H. (2009) Effects of HIV-1 immune selection on susceptability to integrase inhibitor resistance. In: 12th European AIDS Conference (EACS) 2009, 11 - 14 November 2009, Cologne, Germany.

Gaudieri, S., Rauch, A., Pfafferott, K., Barnes, E., Cheng, W., McCaughan, G., Shackel, N., Jeffrey, G.P., Mollison, L., Baker, R., Furrer, H., Günthard, H.F., Freitas, E., Humphreys, I., Klenerman, P., Mallal, S., James, I., Roberts, S., Nolan, D. and Lucas, M. (2009) Hepatitis C virus drug resistance and immune-driven adaptations: Relevance to new antiviral therapy. Hepatology, 49 (4). pp. 1069-1082.

Price, P. and James, I. (2009) IL1A alleles associate with a virological response to antiretroviral therapy in HIV patients beginning therapy with advanced disease. AIDS, 23 (9). pp. 1173-1176.

James, I., McKinnon, E., Gaudieri, S. and Morahan, G. (2009) Missingness in the T1DGC MHC fine-mapping SNP data: association with HLA genotype and potential influence on genetic association studies. Diabetes, Obesity and Metabolism, 11 (Supp. 1). pp. 101-107.

Keane, N.M., Roberts, S.G., Laird, R., Chopra, A., Krishnan, T., Almeida, C.M., Bronke, C., Mallal, S., James, I. and John, M. (2009) P09-15. Selection of higher avidity HLA-restricted T cell responses as a viral adaptation strategy. Retrovirology, 6 (Suppl 3, 22 October 2009). P128.

Keane, N., Roberts, S., Laird, R., Chopra, A., Krishnan, T., Almeida, C., Bronke, C., Mallal, S., James, I. and John, M. (2009) P09-15. Selection of higher avidity HLA-restricted T cell responses as a viral adaptation strategy. In: AIDS Vaccine 2009, 19 - 22 October 2009, Paris, France.

Mastaglia, F.L., Needham, M., Scott, A., James, I., Zilko, P., Day, T., Kiers, L., Corbett, A., Witt, C.S., Allcock, R., Laing, N., Garlepp, M. and Christiansen, F.T. (2009) Sporadic inclusion body myositis: HLA-DRB1 allele interactions influence disease risk and clinical phenotype. Neuromuscular Disorders, 19 (11). pp. 763-765.

2008

Needham, M., Hooper, A., James, I., van Bockxmeer, F., Corbett, A., Day, T., Garlepp, M.J. and Mastaglia, F.L. (2008) Apolipoprotein ε alleles in sporadic inclusion body myositis: A reappraisal. Neuromuscular Disorders, 18 (2). pp. 150-152.

Almeida, C.M., Martin, A.M., Nolan, D., Lucas, A., Cameron, P.U., James, I., Phillips, E. and Mallal, S. (2008) Cytokine profiling in abacavir hypersensitivity patients. Antiviral Therapy, 13 (2). pp. 281-288.

Rauch, A., Nolan, D., Furrer, H., McKinnon, E., John, M., Mallal, S., Gaudieri, S., Günthard, H.F., Schmid, P., Battegay, M., Hirschel, B., Telenti, A., James, I. and Swiss HIV Cohort Study, . (2008) HLA‐Bw4 homozygosity is associated with an impaired CD4 T cell recovery after initiation of antiretroviral therapy. Clinical Infectious Diseases, 46 (12). pp. 1921-1925.

Kulski, J.K., Shigenari, A., Shiina, T., Ota, M., Hosomichi, K., James, I. and Inoko, H. (2008) Human endogenous retrovirus (HERVK9) structural polymorphism with haplotypic HLA-A allelic associations. Genetics, 180 (1). pp. 445-457.

Tan, D.B.A., Yong, Y.K., Tan, H.Y., Kamarulzaman, A., Tan, L.H., Lim, A., James, I., French, M. and Price, P. (2008) Immunological profiles of immune restoration disease presenting as mycobacterial lymphadenitis and cryptococcal meningitis. HIV Medicine, 9 (5). pp. 307-316.

Rauch, A., Gaudieri, S., Evison, J., Nolan, D., Cavassini, M., Weber, R., James, I. and Furrer, H. (2008) Low current and nadir CD4+ T-cell counts are associated with higher hepatitis C virus RNA levels in the Swiss HIV cohort study. Antiviral Therapy, 13 (3). pp. 455-60.

Needham, M., James, I., Corbett, A., Day, T., Christiansen, F., Phillips, B. and Mastaglia, F.L. (2008) Sporadic inclusion body myositis: Phenotypic variability and influence of HLA-DR3 in a cohort of 57 Australian cases. Journal of Neurology, Neurosurgery & Psychiatry, 79 (9). pp. 1056-1060.

2007

Harari, A., Cellerai, C., Enders, F.B., Kostler, J., Codarri, L., Tapia, G., Boyman, O., Castro, E., Gaudieri, S., James, I., John, M., Wagner, R., Mallal, S. and Pantaleo, G. (2007) Skewed association of polyfunctional antigen-specific CD8 T cell populations with HLA-B genotype. Proceedings of the National Academy of Sciences, 104 (41). pp. 16233-16238.

Pocathikorn, A., Taylor, R.R., James, I. and Mamotte, C.D.S. (2007) LDL-receptor mRNA expression in men is downregulated within an hour of an acute fat load and is influenced by genetic polymorphism. Journal of Nutrition, 137 (9). pp. 2062-2067.

Lim, A., Tan, D.B.A., Price, P., Kamarulzaman, A., Tan, H.Y., James, I. and French, M.A. (2007) Proportions of circulating T cells with a regulatory cell phenotype increase with HIV-associated immune activation and remain high on antiretroviral therapy. AIDS, 21 (12). pp. 1525-1534.

Martin, A., Almeida, C.M., Cameron, P.U., Purcell, Anthony W, Nolan, D., James, I., McCluskey, J., Phillips, E.J., Landay, Alan and Mallal, S. (2007) Immune responses to abacavir in antigen-presenting cells from hypersensitive patients. AIDS, 21 (10). pp. 1233-1244.

Flatau, P., James, I., Watson, R., Wood, G. and Hendershott, P.H. (2007) Leaving the parental home in Australia over the generations: Evidence from the Household, Income and Labour Dynamics in Australia (Hilda) Survey. Journal of Population Research, 24 (1). pp. 51-71.

Gaudieri, S., Rauch, A., Park, L.P., Freitas, E., Herrmann, S., Jeffrey, G., Cheng, W., Pfafferott, K., Naidoo, K., Chapman, R., Battegay, M., Weber, R., Telenti, A., Furrer, H., James, I., Lucas, M., Mallal, S.A. and Swiss HIV Cohort Study, (2007) Erratum: Evidence of viral adaptation to HLA class I-restricted immune pressure in chronic hepatitis C virus infection (Journal of Virology (2006) 80, 22, (11094-11104)). Journal of Virology, 81 (16). pp. 8846-8848.

Flatau, P., James, I., Watson, R., Wood, G. and Hendershott, P.H. (2007) Leaving the parental home in Australia over the generations: evidence from the Household, Income and Labour Dynamics in Australia (Hilda) Survey. Journal of Population Research, 24 (1). pp. 51-71.

McKinnon, E., John, M., Herrmann, S.E. and James, I. (2007) Models and analysis of point-inflated data in a study of markers of HAART efficacy. In: 11th International Workshop on HIV Observational Databases, 22 - 25 March, Monte Carlo.

Harari, A., Cellerai, C., Kostler, J., Gaudieri, S., James, I., John, M., Wagner, R., Mallal, S. and Pantaleo, G. (2007) Relationship between HLA Genotype and the functional profile of Antigen-specific CD8 T cells. In: 14th Conference on Retroviruses and Opportunistic Infections, 25 - 28 February 2007, Los Angeles, U.S.A.

2006

Fernandez, S., Rosenow, A.A., James, I.R., Roberts, S.G., Nolan, R.C., French, M.A. and Price, P. (2006) Recovery of CD4+ T Cells in HIV Patients With a Stable Virologic Response to Antiretroviral Therapy Is Associated With Polymorphisms of Interleukin-6 and Central Major Histocompatibility Complex Genes. JAIDS Journal of Acquired Immune Deficiency Syndromes, 41 (1). pp. 1-5.

Gaudieri, S., Rauch, A., Naidoo, K., Park, P., Freitas, E., Herrmann, S., Jeffrey, G., Cheng, W., Pfafferott, K., Chapman, R., Battegay, M., Weber, R., Telenti, A., Furrer, H., James, I., Lucas, M., Mallal, S.A. and Swiss HIV Cohort Study, (2006) Evidence of viral adaptation to HLA Class I-restricted immune pressure in chronic Hepatitis C virus infection. In: 13th International Meeting on Hepatitis C Virus & Related Viruses, 27 - 31 August, Cairns, Australia.

Gaudieri, S., Rauch, A., Park, L.P., Freitas, E., Herrmann, S., Jeffrey, G., Cheng, W., Pfafferott, K., Naidoo, K., Chapman, R., Battegay, M., Weber, R., Telenti, A., Furrer, H., James, I., Lucas, M., Mallal, S.A. and Swiss HIV Cohort Study, (2006) Evidence of viral adaptation to HLA class I-restricted immune pressure in chronic hepatitis C virus infection. Journal of Virology, 80 (22). pp. 11094-11104.

Burgess, K., Price, P., James, I.R., Stone, S.F., Keane, N.M., Lim, A.Y.F., Warmington, J.R. and French, M.A. (2006) Interferon-Gamma responses to candida recover slowly or remain low in immunodeficient HIV patients responding to ART. Journal of Clinical Immunology, 26 (2). pp. 160-167.

Pace, C., Keller, J., Nolan, D., James, I., Gaudieri, S., Moore, C. and Mallal, S. (2006) Population level analysis of human immunodeficiency virus type 1 hypermutation and its relationship with APOBEC3G and vif genetic variation. Journal of Virology, 80 (18). pp. 9259-9269.

Cherry, C.L., Nolan, D., James, I.R., McKinnon, E.J., Mallal, S.A., Gahan, M.E., Lal, L., McArthur, J.C. and Wesselingh, S.L. (2006) Tissue-specific associations between mitochondrial DNA levels and current treatment status in HIV-Infected individuals. JAIDS Journal of Acquired Immune Deficiency Syndromes, 42 (4). pp. 435-440.

2005

Martin, A., Almeida, C., Nolan, D., Cameron, P., James, I., Purcell, T., McCluskey, J., Phillips, E. and Mallal, S. (2005) Abacavir stimulates Hsp70 redistribution in Antigen-presenting cells of patients with hypersensitivity: Association with Type-I alcohol dehydrogenase activity. In: 12th Conference on Retroviruses and Opportunistic Infections, 22 - 25 February 2005, Hynes Convention Center, Boston, MA.

James, I., McKinnon, E., John, M. and Mallal, S. (2005) Association of HLA-Bw4 with post-HAART outcomes. In: 9th International Workshop on HIV Observational Databases, 21 - 24 April 2005, Budapest, Hungary.

Almeida, C., Martin, A., Nolan, D., Cameron, P., James, I., Mifsud, N., Purcell, A., McCluskey, J. and Mallal, S. (2005) Chronic in vitro abacavir exposure elicits an immunological response in abacavir naive HIV positive individuals. In: 3rd International AIDS Society Conference on HIV Pathogenesis and Treatment, 24 - 27 July 2005, Rio de Janeiro, Brazil.

McKinnon, E., Lucas, M., French, M., James, I. and Mallal, S. (2005) Differential influence of age on CD4 T-cell response to HAART. In: 9th International Workshop on HIV Observational Databases, 21 - 24 April 2005, Budapest, Hungary.

McKinnon, E., James, I., Lucas, M. and Mallal, S. (2005) Differential influence of age on maximal immune response to HAART. In: 9th International Workshop on HIV Observational Databases, 21 - 24 April 2005, Budapest, Hungary.

Gruters, R.A., Osterhaus, A.D.M.E., Nolan, D., James, I. and Mallal, S. (2005) HIV and smallpox. Science, 308 (5726). 1258b-1259b.

Nolan, D., James, I. and Mallal, S. (2005) HIV/AIDS: HIV: Experiencing the pressures of modern life. Science, 307 (5714). pp. 1422-1424.

Christiansen, F.T., Martin, A.M., Nolan, D.A., Gaudieri, S., Almeida, C., Phillips, E., Cameron, P.U., Moore, C.B., James, I. and Mallal, S.A. (2005) Host MHC influences susceptibility to hypersensitivity reactions to two drugs commonly used in HIV therapy. In: XIX European Immunogenetics & Histocompatibility Conference, 23 - 26 April 2005, Istanbul, Turkey.

John, M., Moore, C.B., James, I.R. and Mallal, S.A. (2005) Interactive selective pressures of HLA-restricted immune responses and antiretroviral drugs on HIV-1. Antiviral Therapy, 10 . pp. 551-555.

Martin, A.M., Nolan, D., James, I., Cameron, P., Keller, J., Moore, C., Phillips, E., Christiansen, F.T. and Mallal, S. (2005) Predisposition to nevirapine hypersensitivity associated with HLA-DRB1*0101 and abrogated by low CD4 T-cell counts. AIDS, 19 (1). pp. 97-99.

2004

McKinnon, E., James, I. and Mallal, S. (2004) Assessment of virological control in patients with HIV undergoing HAART. In: 8th International Workshop on HIV Observational Databases, 25 - 28 March 2004, Montreux, Switzerland.

Martin, A.M., Almeida, C., Nolan, D., Gaudieri, S., James, I., Christiansen, F.T., Purcell, A., McCluskey, J. and Mallal, S. (2004) Carriage of HLA-B*5701 and a haplotypic Hsp70-Hom variant is associated with a Class I MHC-restricted hypersensitivity response to abacavir. In: 11th Conference on Retroviruses and Opportunistic Infections, 8 - 11 February 2004, Washington DC, U.S.A.

Hammond, E., Nolan, D., James, I., McKinnon, E. and Mallal, S. (2004) Contribution of nucleoside analogue reverse transcriptase inhibitor therapy to lipoatrophy in HIV infected patients: A model of drug induced mitochondrial toxicity. In: Mitochodrial Medicine 2004, 4 - 8 August 2004, Pittsburgh, PA.

Hammond, E., Nolan, D., McKinnon, E., James, I. and Mallal, S. (2004) Differential effects of nucleoside reverse transcriptase inhibitor (NRTI) regimens on adipocyte mitochondrial DNA depletion in HIV-infected patients. In: 6th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 25 - 28 October 2004, Washington DC, U.S.A.

Kiepiela, P., Leslie, A.J., Honeyborne, I., Ramduth, D., Thobakgale, C., Chetty, S., Rathnavalu, P., Moore, C.B., Pfafferott, K.J., Hilton, L., Zimbwa, P., Moore, S., Allen, T., Brander, C., Addo, M.M., Altfeld, M., James, I., Mallal, S., Bunce, M., Barber, L.D., Szinger, J., Day, C., Klenerman, P., Mullins, J., Korber, B., Coovadia, H.M., Walker, B.D. and Goulder, P.J.R. (2004) Dominant influence of HLA-B in mediating the potential co-evolution of HIV and HLA. Nature, 432 (7018). pp. 769-775.

Martin, A.M., Nolan, D., Gaudieri, S., Almeida, C., James, I., Phillips, E. and Mallal, S. (2004) Predisposition to abacavir hypersensitivity conferred by HLA-B*5701 and a haplotypic Hsp70-Hom variant. Proceedings of the National Academy of Sciences, 101 (12). pp. 4180-4185.

Martin, A., Cameron, P., Nolan, D., James, I., Keller, J., Phillips, E. and Mallal, S. (2004) Predisposition to nevirapine hypersensitivity associated with HLA-DRB1*01 and higher CD4+ T cell counts. In: XV International AIDS Conference, 11 - 16 July 2004, Bangkok, Thailand.

Hammond, E., Nolan, D., James, I., Metcalf, C. and Mallal, S. (2004) Reduction of mitochondrial DNA content and respiratory chain activity occurs in adipocytes within 6-12 months of commencing nucleoside reverse transcriptase inhibitor therapy. AIDS, 18 (5). pp. 815-817.

2003

Herrmann, S., Hyland, N., Coombs, A., Turner, K., Duncan, F., McKinnon, E., James, I., Martinez, O.P., French, M. and Mallal, S. (2003) Adherence to antiretroviral therapy in the WA HIV Cohort. In: 15th Annual Conference of the Australian Society for HIV Medicine, 22 - 25 October, Cairns, Australia.

James, I., Nolan, D., McKinnon, E., Hammond, E. and Mallal, S. (2003) Contribution of nucleoside analogue reverse transcriptase inhibitor therapy to lipodystrophy: Trends in subcutaneous fat wasting and association with mitochondrial DNA depletion. In: 7th International Workshop on HIV Observational Databases, 28-30 March 2003, Fiuggi, Italy.

Nolan, D., Hammond, E., James, I., McKinnon, E. and Mallal, S. (2003) Contribution of nucleoside-analogue reverse transcriptase inhibitor therapy to lipoatrophy from the population to the cellular level. Antiviral Therapy, 8 . pp. 617-626.

Hammond, E., Nolan, D., James, I., McKinnon, E., White, A. and Mallal, S. (2003) Evidence of toxicity in Adipose tissue of HIV-infected patients correlates with NRTI-associated mtDNA depletion. In: 10th Conference on Retroviruses and Opportunistic Infections, 10 - 14 February 2003, Boston, U.S.A.

Mallal, S., Moore, C., Carvalho, F., Patterson, A., Liu, C., Goodridge, D., Sayer, D., James, I. and John, M. (2003) HIV adaptation to HLA-restricted immune responses - implications for vaccine design and evaluation. In: 10th Conference on Retroviruses and Opportunistic Infections, 10 - 14 February 2003, Boston, U.S.A.

Cherry, C., Nolan, D., James, I., Mallal, S., McKinnon, E., French, M., Hammond, E., Gahan, M., McArthur, J. and Wesselingh, S. (2003) Longitudinal associations between antiretroviral treatments and quantification of tissue mitochondrial DNA from ambulatory subjects with HIV infection. In: 10th Conference on Retroviruses and Opportunistic Infections, 10 - 14 February 2003, Boston, U.S.A.

James, I., Nolan, D., Hammond, E., McKinnon, E. and Mallal, S. (2003) Longitudinal effects on subcutaneous fatmass of initiating or switching stavudine and zidovudine-based antiretroviral therapy. In: 5th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 8 - 11 July, Paris, France.

Christiansen, F.T., Gaudieri, S., Santis, D.D., Moore, C.B., Witt, C.S., James, I.R. and Mallal, S.A. (2003) NK receptor genes are predictors of HIV progression. Human Immunology, 64 (10). S12.

Christiansen, F.T., Gaudieri, S., De Santis, D., Moore, C.B., Witt, C.S., James, I.R. and Mallal, S. (2003) NK receptor genes are predictors of HIV progression. In: 29th Annual Meeting of the American Society for Histocompatibility and Immunogenetics, 28 October - 1 November 2003, Miami Beach, Florida.

John, M., McKinnon, E.J., James, I.R., Nolan, D., Herrmann, S.E., Moore, C.B., White, A.J. and Mallal, S.A. (2003) Randomised, controlled, 48-week study of switching stavudine and/or protease inhibitors to Combavir/abacavir to prevent or reverse lipoatrophy in HIV-infected patients. JAIDS Journal of Acquired Immune Deficiency Syndromes, 33 (1). pp. 29-34.

McKinnon, E.J., James, I.R. and Mallal, S. (2003) Response to HAART: Host genetic associations. In: Annual North American Observational Database Meeting, 13 November 2003, Washington DC, U.S.A.

Hammond, E., Nolan, D., McKinnon, E., James, I. and Mallal, S. (2003) Subcutaneous fat tissue mitochondrial DNA depletion and adipose toxicity are strongly associated with nucleoside reverse transcriptase inhibitor (NRTI) therapy in HIV-infected patients. In: 5th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 8 - 11 July, Paris, France.

Nolan, D., Moore, C., Castley, A., Sayer, D., Marmotte, C., John, M., James, I. and Mallal, S. (2003) Tumour necrosis factor-alpha gene -238G/A promoter polymorphism associated with a more rapid onset of lipodystrophy. AIDS, 17 (1). pp. 121-123.

McKinnon, E.J., James, I.R., John, M. and Mallal, S.A. (2003) Viral load detectability profiles for HIV infection. Statistics in Medicine, 22 (3). pp. 385-396.

McKinnon, E., Fusco, J., John, M., Fusco, G., James, I. and Mallal, S. (2003) Virological response to first HAART - a CHORUS/WAHIV collaborative study. In: 7th International Workshop on HIV Observational Databases, 28-30 March 2003, Fiuggi, Italy.

Christiansen, F.T., Gaudieri, S., Moore, C.B., Martin, A., Nolan, D., James, I.R., McKinnon, E., DeSantis, D., Witt, C.S. and Mallal, S. (2003) The immune response to HIV: The interplay between virus and host genetic factors. In: British Society for Immunology Annual Congress, 2 - 5 December 2003, Harrogate, England.

2002

Mallal, S., Nolan, D., Witt, C., Masel, G., Martin, A.M., Moore, C., Sayer, D., Castley, A., Mamotte, C., Maxwell, D., James, I. and Christiansen, F.T. (2002) Association between presence of HLA-B*5701, HLA-DR7, and HLA-DQ3 and hypersensitivity to HIV-1 reverse-transcriptase inhibitor abacavir. The Lancet, 359 (9308). pp. 727-732.

James, I., McKinnon, E. and Mallal, S. (2002) Comparison of rates of progression in HIV observational cohorts. In: 6th International Workshop on HIV Observational Databases, 21 - 22 March 2002, Sintra, Portugal.

McKinnon, E., John, M., James, I. and Mallal, S. (2002) Effect of baseline CD4 on virological response to first HAART. In: 6th International Workshop on HIV Observational Databases, 21 - 22 March 2002, Sintra, Portugal.

Moore, C.B., John, M., James, I.R., Christiansen, F.T., Witt, C.S. and Mallal, S. (2002) Evidence of HIV-1 Adaptation to HLA-Restricted Immune Responses at a Population Level. Science, 296 (5572). pp. 1439-1443.

John, M., Moore, C., James, I. and Mallal, S. (2002) Immune escape mutations in HIV-1 at a population level. In: GSK Observational HIV Cohorts Meeting, 6 - 7 November 2002, Boston, U.S.A.

John, M., Moore, C.B., James, I.R., Christiansen, F.T., Witt, C.S. and Mallal, S.A. (2002) Immune escape mutations in HIV-1 sequence: The influence of HLA class I and II alleles in a host population on viral evolution. In: XIII International Congress of Histocompatibility and Immunogenetics, 18 - 22 May 2002, Seattle, U.S.A.

Christiansen, F.T., John, M., James, I.R., Witt, C.S. and Mallal, S.A. (2002) Immune escape mutations in HIV-1 sequence: the influence of HLA class I and II alleles in a host population on viral evolution. Human Immunology, 63 (10). S35.

Christiansen, F.T., John, M., James, I., Witt, C. and Mallal, S. (2002) Immune escape mutations in HIV-1 sequence: the influence of HLA class I and II alleles in a host population on viral evolution. In: 28th Annual Meeting of the American Society for Histocompatibility and Immunogenetics, 19 - 23 October 2002, Nashville, TN.

Christiansen, F.T., Gaudieri, S., De Santis, D., Witt, C.S., James, I.R. and Mallal, S. (2002) NK receptor genes are predictors of HIV progression. In: 28th Annual Meeting of the American Society for Histocompatibility and Immunogenetics, 19 - 23 October 2002, Nashville, TN.

McKinnon, E., James, I. and Mallal, S. (2002) Progessive matching in HIV observational studies. In: 6th International Workshop on HIV Observational Databases, 21 - 22 March 2002, Sintra, Portugal.

Nolan, D., James, I., McKinnon, E. and Mallal, S. (2002) Stavudine, zidovudine and protease inhibitor therapy effects on subcutaneous leg fat wasting in HIV-infected males. In: 4th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 22 - 25 September 2002, San Diego, CA.

Nolan, D., Moore, C., Castley, A., Sayer, D., Mamotte, C., John, M., James, I. and Mallal, S. (2002) Tumour necrosis factor alpha gene - 238G/A promoter polymorphism associated with more rapid onset of lipodystrophy. In: 4th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 22 - 25 September 2002, San Diego, CA.

McKinnon, E., Fusco, J., Fusco, G., John, M., James, I. and Mallal, S. (2002) Virologic response to HAART in the CHORUS cohort. In: GSK Observational HIV Cohorts Meeting, 6 - 7 November 2002, Boston, U.S.A.

Moore, C., John, M., James, I. and Mallal, S. (2002) The influence of host HLA on antiretroviral drug resistance mutation in HIV-1. In: 9th Conference on Retroviruses and Opportunistic Infections, 24 - 28 February 2002, Seattle, U.S.A.

Mallal, S., Witt, C., Martin, A.M., Masel, G., Moore, C., Sayer, D., Castley, A., Mamotte, C., Nolan, D., James, I. and Christiansen, F.T. (2002) The presence of HLA-B*5701, -DRB1*0701 and -DQ3 is highly predictive of hypersensitivity to the HIV reverse transcriptase inihibitor abacavir. In: XIII International Congress of Histocompatibility and Immunogenetics, 18 - 22 May 2002, Seattle, U.S.A.

Mallal, S., Nolan, D., Witt, C., Masel, G., Martin, A., Moore, C., Sayer, D., Castley, A., Mamotte, C., Maxwell, D., James, I. and Christiansen, F. (2002) The presence of HLA-B*5701, -DRB1*0701, and -DQ3 Is highly predictive of hypersensitivity to the HIV reverse transcriptase inhibitor abacavir. In: 9th Conference on Retroviruses and Opportunistic Infections, 24 - 28 February 2002, Seattle, U.S.A.

John, M., James, I., McKinnon, E., Nolan, D., Herrmann, S., Cain, A., Martinez, O.P., White, A. and Mallal, S. (2002) A randomised, controlled, Open-label study of revision of antiretroviral regimens containing stavudine (d4T) and/or a Protease Inhibitor (PI) to Zidovudine (ZDV)/Lamivudine (3TC)/Abacavir (ABC) to prevent or reverse lipoatrophy: 48-week data. In: 9th Conference on Retroviruses and Opportunistic Infections, 24 - 28 February 2002, Seattle, U.S.A.

2001

John, M., Moore, C., James, I. and Mallal, S. (2001) Characteristic Non-synonymous mutation in HIV reverse transcriptase sequence encoding an HLA-B7-restricted CTL epitope is associated with increased viral load. In: 8th Conference on Retroviruses and Opportunistic Infections , 4 - 8 February 2001, Chicago, IL.

John, M., Moore, C.B., James, I.R., Nolan, D., Upton, R.P., McKinnon, E.J. and Mallal, S.A. (2001) Chronic hyperlactatemia in HIV-infected patients taking antiretroviral therapy. AIDS, 15 (6). pp. 717-723.

James, I., Moore, C., John, M., Nolan, D., McKinnon, E. and Mallal, S. (2001) Effect of HAART on subcutaneous fat in HIV-infected males: A longitudinal study. In: 5th International Workshop on HIV Observational Databases, 26 - 27 April 2001, Monte Carlo.

John, M., Moore, C., James, I. and Mallal, S. (2001) Selection of immune escape mutation in HIV-1 is evident at a population level. In: 13th Annual Conference of the Australian Society for HIV Medicine, 4 - 7 October 2001, Melbourne, VIC.

Nolan, D., Upton, R., McKinnon, E., John, M., James, I., Adler, B., Roff, G., Vasikaran, S. and Mallal, S. (2001) Stable or increasing bone mineral density in HIV-infected patients treated with nelfinavir or indinavir. AIDS, 15 (10). pp. 1275-1280.

2000

Mallal, S., Moore, C., John, M., James, I., Nolan, D., Sayer, D. and Witt, C. (2000) Characteristic changes in HIV reverse trancriptase sequence at sites encoding known CTL epitopes at a population level. In: XIII International AIDS Conference, 9 - 14 July 2000, Durban, South Africa.

Moore, C., John, M., James, I. and Mallal, S. (2000) Characteristic mutations in HIV-1 reverse transcriptase sequence encoding HLA class I restricted CTL epitopes: Evidence of HIV-1 CTL escape at a population level. In: 24th Annual Australasian and South East Asian Tissue Typing Association Conference, 30 November - 3 December 2000, Perth, Western Australia.

Mallal, S.A., John, M., Moore, C.B., James, I.R. and McKinnon, E.J. (2000) Contribution of nucleoside analogue reverse transcriptase inhibitors to subcutaneous fat wasting in patients with HIV infection. AIDS, 14 (10). pp. 1309-1316.

French, M.A., Lenzo, N., John, M., Mallal, S.A., McKinnon, E.J., James, I.R., Price, P., Flexman, J.P. and Tay-Kearney, M-L (2000) Immune restoration disease after the treatment of immunodeficient HIV-infected patients with highly active antiretroviral therapy. HIV Medicine, 1 (2). pp. 107-115.

Nolan, D., Upton, R., James, I., McKinnon, E., John, M. and Mallal, S. (2000) Longitudinal analysis of Bone Mineral Density (BMD) in HIV-infected patients treated with HAART: Changes in BMD correlate with change in subcutaneous fat; with an additional independent effect of indinavir therapy to increase BMD. In: 2nd International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 13 - 15 September 2000, Toronto, Canada.

Nolan, D., Upton, R., James, I., McKinnon, E., John, M. and Mallal, S. (2000) Longitudinal analysis of bone mineral density (BMD) in HIV-infected patients treated with HAART: Changes in BMD correlate with change in subcutaneous fat: With an additional independent effect of indinavir therapy to increase BMD. Antiviral Therapy, 5 (Supp. 5).

John, M., Moore, C., James, I., Nolan, D., Upton, R. and Mallal, S. (2000) Predictors of lactic acidemia in the WA HIV cohort. In: Fourth International Cohorts Meeting on HIV Observational Databases, 30 - 31 March 2000, Marbella, Spain.

John, M., Moore, C., James, I., Nolan, D. and Mallal, S. (2000) Predictors of response to antiretroviral therapy in the WA HIV cohort. In: Fourth International Cohorts Meeting on HIV Observational Databases, 30 - 31 March 2000, Marbella, Spain.

White, A.J., John, M., Moore, C., James, I.R., Nolan, D. and Mallal, S.A. (2000) Raised lactate levels are common and may be predictive of subcutaneous fat wasting. In: 2nd International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 13 - 15 September 2000, Toronto, Canada.

John, M., Moore, C., James, I., McKinnon, E. and Mallal, S. (2000) Relative contribution of NRTIs, NNRTIs and PIs to chronic asymptomatic lactic acidaemia in HIV infected patients. In: European Symposium on Lipodyctrophy and HIV Infection, 24 - 25 March 2000, Marrakesh, Morocco.

1999

Mallal, S., Moore, C., James, I.R., Sayer, D., Witt, C., Christiansen, F.T. and French, M.A. (1999) Class I MHC associated non-synonymous mutations of HIV sequences - possible selection of CTL escape mutations at a population level? In: A Keystone Symposia HIV Vaccine Development: Opportunities and Challenges and AIDS Pathogenesis, 7 - 13 January 1999, Colorado, U.S.A.

Mallal, S., John, M., Moore, C., James, I. and McKinnon, E. (1999) Protease inhibitors and nucleoside analogue reverse transcriptase inhibitors interact to cause subcutaneous fat wasting in patients with HIV infection. In: 7th European Conference on Clinical Aspects and Treatment of HIV-Infection , 23 - 27 October 1999, Lisbon, Portugal.

1995

James, I.R., Hogan, S.J. and Mallal, S.A. (1995) Analysis of doubly censored data and the HIV incubation period distribution in Western Australia. Australian Journal of Statistics, 37 (3). pp. 299-312.

Mallal, S., James, I.R., Koenig, A. and French, M.A.H. (1995) Impact of anti-retroviral therapy and pneumocystis carinii pneumonia prophylaxis on the pattern of AIDS illnesses and AIDS survival in the Western Australian HIV Cohort Study: 1983 - 1992. In: Annual Meeting of the Australasian Society for HIV Medicine (ASHM), 16 - 19 November 1995, Coolum, Australia.

Segal, M.R., James, I.R., French, M.A.H. and Mallal, S.A. (1995) Statistical issues in the evaluation of markers of HIV progression. International Statistical Review/ Revue Internationale de Statistique , 63 (2). pp. 179-197.

Mallal, S., Mallon, D.J.F., Cameron, P.U., James, I.R. and French, M.A.H. (1995) The influence of past Toxoplasma gondii, syphilis, Hepatitis B and C and Cytomegalovirus infections on survival of HIV-1 infected participants of the Western Australian HIV Cohort Study. In: 2nd National Conference on Human Retroviruses and Related Infections, 27 January - 2 Feb 1995, Washington DC.

1994

Mallal, S.A., James, I.R. and French, M.A.H. (1994) Detection of subclinical Mycobacterium avium intracellulare complex infection in immunodeficient HIV-infected patients treated with zidovudine. AIDS, 8 (9). pp. 1263-1269.

Mallon, D.J.F., Mallal, S., James, I.R. and French, M.A.H. (1994) Infection with some co-pathogens influences HIV-related mortality. In: Australasian Society for HIV Medicine (ASHM) 6th Annual Conference , 3 - 6 November 1994, Manly Pacific Park Royal, Sydney.

Mallal, S., Martinez, O.P., French, M.A.H., James, I.R. and Dawkins, R.L. (1994) Severity and outcome of Pneumocystis Carinii Pneumonia (PCP) in patients of known and unknown HIV status. JAIDS Journal of Acquired Immune Deficiency Syndromes, 7 (2). pp. 148-153.

1993

Halse, S., James, I., Fitzgerald, P., Diepeveen, D. and Munro, D. (1993) Survival and hunting mortality of Pacific black ducks and grey teal. Journal of Wildlife Management, 57 (1). pp. 42-48.

1990

Newnham, J.P., Patterson, L.L., James, I. and Diepeveen, D. (1990) An evaluation of the efficacy of Doppler flow velocity waveform analysis as a screening test in pregnancy. American Journal of Obstetrics and Gynecology, 162 (2). pp. 403-410.