Publications: Mallal, Simon

2013

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.

Yagita, Y., Kuse, N., Kuroki, K., Gatanaga, H., Carlson, J. M., Chikata, T., Brumme, Z. L., Murakoshi, H., Akahoshi, T., Pfeifer, N., Mallal, S., John, M., Ose, T., Matsubara, H., Kanda, R., Fukunaga, Y., Honda, K., Kawashima, Y., Ariumi, Y., Oka, S., Maenaka, K. and Takiguchi, M. (2013) Distinct HIV-1 Escape Patterns Selected by Cytotoxic T Cells with Identical Epitope Specificity. Journal of Virology, 87 (4). pp. 2253-2263.

Bronke, C., Almeida, C.M., McKinnon, E., Roberts, S.G., Keane, N.M., Chopra, A., Carlson, J.M., Heckerman, D., Mallal, S. and John, M. (2013) HIV escape mutations occur preferentially at HLA-binding sites of CD8 T-cell epitopes. AIDS, 27 (6). pp. 899-905.

Herrmann, S., McKinnon, E., Hyland, N.B., Lalanne, C., Mallal, S., Nolan, D., Chassany, O. and Duracinsky, M. (2013) HIV-related stigma and physical symptoms have a persistent influence on health-related quality of life in Australians with HIV infection. Health and Quality of Life Outcomes, 11 (1).

Phillips, E.J. and Mallal, S.A. (2013) HLA-B*5701 and flucloxacillin associated drug-induced liver disease. AIDS, 27 (3). pp. 491-492.

Apps, R., Qi, Y., Carlson, J.M., Chen, H., Gao, X., Thomas, R., Yuki, Y., Del Prete, G.Q., Goulder, P., Brumme, Z.L., Brumme, C.J., John, M., Mallal, S., Nelson, G., Bosch, R., Heckerman, D., Stein, J.L., Soderberg, K.A., Moody, M.A., Denny, T.N., Zeng, X., Fang, J., Moffett, A., Lifson, J.D., Goedert, J.J., Buchbinder, S., Kirk, G.D., Fellay, J., McLaren, P., Deeks, S.G., Pereyra, F., Walker, B., Michael, N.L., Weintrob, A., Wolinsky, S., Liao, W. and Carrington, M. (2013) Influence of HLA-C expression level on HIV control. Science, 340 (6128). pp. 87-91.

2012

Hammond, E., McKinnon, E., Glendenning, P., Williams, R., Mallal, S. and Phillips, E. (2012) Association between 25-OH vitamin D and insulin is independent of lipoatrophy in HIV. Clinical Endocrinology, 76 (2). pp. 201-206.

Carlson, J.M., Brumme, C.J., Martin, E., Listgarten, J., Brockman, M.A., Le, A.Q., Chui, C.K.S., Cotton, L.A., Knapp, D.J.H.F., Riddler, S.A., Haubrich, R., Nelson, G., Pfeifer, N., DeZiel, C.E., Heckerman, D., Apps, R., Carrington, M., Mallal, S., Harrigan, P.R., John, M. and Brumme, Z.L. (2012) Correlates of protective cellular immunity revealed by analysis of population-level immune escape pathways in HIV-1. Journal of Virology, 86 (24). pp. 13202-13216.

Ostrov, D.A., Grant, B.J., Pompeu, Y.A., Sidney, J., Harndahl, M., Southwood, S., Oseroff, C., Lu, S., Jakoncic, J., de Oliveira, C.A.F., Yang, L., Mei, H., Shi, L., Shabanowitz, J., English, A.M., Wriston, A., Lucas, A., Phillips, E., Mallal, S., Grey, H.M., Sette, A., Hunt, D.F., Buus, S. and Peters, B. (2012) Drug hypersensitivity caused by alteration of the MHC-presented self-peptide repertoire. Proceedings of the National Academy of Sciences, 109 (25). pp. 9959-9964.

Keane, N., Almeida, C., Chopra, A., Cooper, D., Demaine, E., Mallal, S. and John, M. (2012) Early changes in the CD8 T Cell immunodominance hierarchy in primary HIV infection prior to seroconversion. Retrovirology, 9 (Suppl 2).

Keane, N., Almeida, C., Roberts, S., Ahmad, I., Mallal, S. and John, M. (2012) Evaluation of the dual IFNγ/IL-2 fluorospot-assay with flow cytometry for detection of HLA-restricted HIV-specific T-cell responses in HIV controllers. Retrovirology, 9 (Suppl 2). P243.

Pavlos, R., Mallal, S. and Phillips, E. (2012) HLA and pharmacogenetics of drug hypersensitivity. Pharmacogenomics, 13 (11). pp. 1285-1306.

Chikata, T., Carlson, J.M., Tamura, Y., Brumme, Z.L., Naruto, T., Hashimoto, M., Borghan, M.A., John, M., Mallal, S., Gatanaga, H., Oka, S. and Yakiguchi, M. (2012) HLA-associated viral polymorphism in chronically HIV-1-infected Japanese cohort: analysis of four-digit HLA allele level. Retrovirology, 9 (Suppl 2).

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.

Cotton, L., Chopera, D., Penney, K., Carlson, J., Martin, E., Le, A., Kuang, T., Walker, B., Fuchs, J., Buchbinder, S., Wagner, T., John, M., Mallal, S., Koblin, B., Mayer, K., Poon, A., Brockman, M. and Brumme, Z. (2012) Limited evidence for alterations in Gag-mediated HIV replication capacity over the course of the North American epidemic (1979-present). Retrovirology, 9 (Suppl 2). P157.

Brockman, M.A., Chopera, D.R., Olvera, A., Brumme, C.J., Sela, J., Markle, T.J., Martin, E., Carlson, J.M., Le, A.Q., McGovern, R., Cheung, P.K., Kelleher, A.D., Jessen, H., Markowitz, M., Rosenberg, E., Frahm, N., Sanchez, J., Mallal, S., John, M., Harrigan, P.R., Heckerman, D., Brander, C., Walker, B.D. and Brumme, Z.L. (2012) Uncommon pathways of immune escape attenuate HIV-1 integrase replication capacity. Journal of Virology, 86 (12). pp. 6913-6923.

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.

Herrmann, S., Wardrop, J., John, M., Gaudieri, S., Lucas, M., Mallal, S. and Nolan, D. (2012) The impact of visa status and Medicare eligibility on people diagnosed with HIV in Western Australia: a qualitative report. Sexual Health, 9 (5). p. 407.

Pompeu, Y.A., Stewart, J.D., Mallal, S., Phillips, E., Peters, B. and Ostrov, D.A. (2012) The structural basis of HLA-associated drug hypersensitivity syndromes. Immunological Reviews, 250 (1). pp. 158-166.

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.

Phillips, E.J., Chung, W-H, Mockenhaupt, M., Roujeau, J-C and Mallal, S. (2011) Drug hypersensitivity: Pharmacogenetics and clinical syndromes. Journal of Allergy and Clinical Immunology, 127 (3). S60-S66.

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.

Phillips, E.J. and Mallal, S.A. (2011) HLA-B*1502 Screening and toxic effects of carbamazepine. New England Journal of Medicine, 365 (7). pp. 672-673.

Suppiah, V., Gaudieri, S., Armstrong, N.J., O'Connor, K.S., Berg, T., Weltman, M., Abate, M.L., Spengler, U., Bassendine, M., Dore, G.J., Irving, W.L., Powell, E., Hellard, M., Riordan, S., Matthews, G., Sheridan, D., Nattermann, J., Smedile, A., Müller, T., Hammond, E., Dunn, D.S., Negro, F., Bochud, P-Y, Mallal, S., Ahlenstiel, G., Stewart, G.J., George, J. and Booth, D.R. (2011) IL28B, HLA-C, and KIR variants additively predict response to therapy in chronic Hepatitis C virus infection in a European cohort: A cross-sectional study. PLoS Medicine, 8 (9). e1001092.

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.

Kostenko, L., Kjer-Nielsen, L., Nicholson, I., Hudson, F., Lucas, A., Foley, B., Chen, K., Lynch, K., Nguyen, J., Wu, A.H.B., Tait, B.D., Holdsworth, R., Mallal, S., Rossjohn, J., Bharadwaj, M. and McCluskey, J. (2011) Rapid screening for the detection of HLA-B57 and HLA-B58 in prevention of drug hypersensitivity. Tissue Antigens, 78 (1). pp. 11-20.

Almeida, C.M., Bronke, C., Roberts, S.G., McKinnon, E., Keane, N.M., Chopra, A., Kadie, C., Carlson, J., Haas, D. W., Riddler, S. A., Haubrich, R., Heckerman, D., Mallal, S. and John, M. (2011) Translation of HLA-HIV associations to the cellular level: HIV adapts to inflate CD8 T cell responses against Nef and HLA-adapted variant epitopes. The Journal of Immunology, 187 (5). pp. 2502-2513.

2010

Phillips, E.J. and Mallal, S.A. (2010) Abacavir. In: Wu, A.H.B. and Kiang-Teck, J.Y., (eds.) Pharmacogenomic Testing in Current Clinical Practice. Humana Press, New York, U.S.A, pp. 201-212.

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.

Iwabu, Y., Kinomoto, M., Tatsumi, M., Fujita, H., Shimura, M., Tanaka, Y., Ishizaka, Y., Nolan, D., Mallal, S., Sata, T. and Tokunaga, K. (2010) Differential anti-APOBEC3G activity of HIV-1 Vif proteins derived from different subtypes. Journal of Biological Chemistry, 285 (46). pp. 35350-35358.

Almeida, C.M., Roberts, S.G., Laird, R., McKinnon, E., Ahmad, I., Keane, N.M., Chopra, A., Kadie, C., Heckerman, D., Mallal, S. and John, M. (2010) Exploiting knowledge of immune selection in HIV-1 to detect HIV-specific CD8 T-cell responses. Vaccine, 28 (37). pp. 6052-6057.

Phillips, E.J. and Mallal, S.A. (2010) HLA and drug reactions. In: Mehra, N.K., Kaur, G., McCluskey, J., Christiansen, F.T. and Claas, F.H.J., (eds.) The HLA Complex in Biology and Medicine: A Resource Book. Jaypee Brothers Medical Publishers (P) Ltd, New Delhi, India, pp. 332-349.

Worm, S.W., Friis-Møller, N., Bruyand, M., Monforte, A.D., Rickenbach, M., Reiss, P., El-Sadr, W., Phillips, A., Lundgren, J., Sabin, C. and Mallal, S. (2010) High prevalence of the metabolic syndrome in HIV-infected patients: impact of different definitions of the metabolic syndrome. AIDS, 24 (3). pp. 427-435.

Phillips, E.J. and Mallal, S. (2010) Pharmacogenetics of drug hypersensitivity. Pharmacogenomics, 11 (7). pp. 973-987.

Friis-Møller, N., Thiébaut, R., Reiss, P., Weber, R., Monforte, A.D., De Wit, S., El-Sadr, W., Fontas, E., Worm, S., Kirk, O., Phillips, A., Sabin, C.A., Lundgren, J.D., Law, M.G. and Mallal, S. (2010) Predicting the risk of cardiovascular disease in HIV-infected patients: The Data collection on Adverse Effects of Anti-HIV Drugs Study. European Journal of Cardiovascular Prevention & Rehabilitation, 17 (5). pp. 491-501.

Smyth, R.P., Schlub, T.E., Grimm, A., Venturi, V., Chopra, A., Mallal, S., Davenport, M.P. and Mak, J. (2010) Reducing chimera formation during PCR amplification to ensure accurate genotyping. Gene, 469 (1-2). pp. 45-51.

Herrmann, S.E., McKinnon, E.J., Williams, L.J., John, M., Mallal, S., Lucas, M. and Nolan, D.A. (2010) Use of alcohol, nicotine and other drugs in the Western Australian HIV Cohort study. Sexual Health, 9 (2). pp. 199-201.

2009

Falster, K., Choi, J.Y., Donovan, B., Duncombe, C., Mulhall, B., Sowden, D., Zhou, J., Law, M.G. and Mallal, S. (2009) AIDS-related and non-AIDS-related mortality in the Asia-Pacific region in the era of combination antiretroviral treatment. AIDS, 23 (17). pp. 2323-2336.

Kawashima, Y., Pfafferott, K., Frater, J., Matthews, P., Payne, R., Addo, M., Gatanaga, H., Fujiwara, M., Hachiya, A., Koizumi, H., Kuse, N., Oka, S., Duda, A., Prendergast, A., Crawford, H., Leslie, A., Brumme, Z., Brumme, C., Allen, T., Brander, C., Kaslow, R., Tang, J., Hunter, E., Allen, S., Mulenga, J., Branch, S., Roach, T., John, M., Mallal, S., Ogwu, A., Shapiro, R., Prado, J.G., Fidler, S., Weber, J., Pybus, O.G., Klenerman, P., Ndung’u, T., Phillips, R., Heckerman, D., Harrigan, P.R., Walker, Bruce D., Takiguchi, M. and Goulder, P. (2009) Adaptation of HIV-1 to human leukocyte antigen class I. Nature, 458 (7238). pp. 641-645.

Almeida, C.M., Roberts, S.G., Laird, R., McKinnon, E., Ahmad, I., Pfafferott, K., Turley, J., Keane, N.M., Lucas, A.D., Rushton, B.C., Chopra, A., Mallal, S. and John, M. (2009) Automation of the ELISpot assay for high-throughput detection of antigen-specific T-cell responses. Journal of Immunological Methods, 344 (1). pp. 1-5.

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.

Fellay, J., Ge, D., Shianna, K.V., Colombo, S., Ledergerber, B., Cirulli, E.T., Urban, T.J., Zhang, K., Gumbs, C.E., Smith, J. P., Castagna, A., Cozzi-Lepri, A., De Luca, A., Easterbrook, P., Günthard, H.F., Mallal, S., Mussini, C., Dalmau, J., Martinez-Picado, J., Miro, J.M., Obel, N., Wolinsky, S.M., Martinson, J.J., Detels, R., Margolick, J.B., Jacobson, L.P., Descombes, P., Antonarakis, S.E., Beckmann, J.S., O'Brien, S.J., Letvin, N.L., McMichael, A.J., Haynes, B.F., Carrington, M., Feng, S., Telenti, A., Goldstein, D.B. and McCarthy, M.I. (2009) Common genetic variation and the control of HIV-1 in humans. PLoS Genetics, 5 (12). e1000791.

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.

Nolan, D. and Mallal, S. (2009) EBV and MS: Lessons from hepatitis and HIV. In: 10th Biennial Scientific Conferene on "Progress on MS Research" - MSRA Conference 2009, 15 - 17 October 2009, Sydney, Australia.

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.

Phillips, E.J. and Mallal, S. (2009) HLA and drug-induced toxicity. Current Opinion in Molecular Therapeutics, 11 (3). pp. 231-242.

Brumme, Z.L., John, M., Carlson, J.M., Brumme, C.J., Chan, D., Brockman, M.A., Swenson, L.C., Tao, I., Szeto, S., Rosato, P., Sela, J., Kadie, C.M., Frahm, N., Brander, C., Haas, D.W., Riddler, S.A., Haubrich, R., Walker, B.D., Harrigan, P.R., Heckerman, D., Mallal, S. and Nixon, D.F. (2009) HLA-Associated immune escape pathways in HIV-1 subtype B Gag, Pol and Nef proteins. PLoS ONE, 4 (8). e6687.

Miura, T., Brumme, C. J., Brockman, M. A., Brumme, Z. L., Pereyra, F., Block, B. L., Trocha, A., John, M., Mallal, S., Harrigan, P. R. and Walker, B. D. (2009) HLA-Associated viral mutations are common in human immunodeficiency virus type 1 elite controllers. Journal of Virology, 83 (7). pp. 3407-3412.

Herrmann, S., Duracinsky, M., Lalanne, C., Acquadro, C., Mallal, S. and Nolan, D. (2009) Health-related quality of life in the WA HIV Cohort: 2008. In: 21st Annual Conference of the Australasian Society for HIV Medicine (ASHM), 9 - 11 September, Brisbane, Australia.

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.

Chopra, A., Watson, M., Cooper, D., Leary, S., John, M. and Mallal, S. (2009) High throughput long amplicon sequencing, assembly and reference mapping of HIV genome using the GS FLX sequencer. In: 21st Annual Conference of the Australasian Society for HIV Medicine (ASHM), 9 - 11 September, Brisbane, Australia.

Almeida, C., Bronke, C., Roberts, S., Cooper, D., Corkery, M., McKinnon, E., Ahmad, I., Keane, N., Chopra, A., Mallal, S., John, M. and Heckerman, D. (2009) Identification of multiple novel HIV-specific T-cell epitopes using HLA-associated HIV polymorphisms. In: 39th Annual Scientific Meeting of the Australasian Society for Immunology 2009, 6 - 10 December 2009, Gold Coast, QLD.

Egger, S., Petoumenos, K., Kamarulzaman, A., Hoy, J., Sungkanuparph, S., Chuah, J., Falster, K., Zhou, J., Law, M.G. and Mallal, S. (2009) Long-term patterns in CD4 response are determined by an interaction between baseline CD4 cell count, viral load, and time: The Asia Pacific HIV Observational Database (APHOD). JAIDS Journal of Acquired Immune Deficiency Syndromes, 50 (5). pp. 513-520.

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.

Phillips, E.J. and Mallal, S. (2009) Personalizing antiretroviral therapy: is it a reality? Personalized Medicine, 6 (4). pp. 393-408.

Mallal, S. (2009) Pharmacogenetic testing for predicting at risk patients: Genotyping and flow cytometry of HLA-B. In: Annual Meeting of the American Association of Clinical Chemistry (AACC) 2009, 19 - 23 July 2009, Chicago, IL.

Falster, K., Petoumenos, K., Chuah, J., Mijch, A., Mulhall, B., Kelly, M., Cooper, D.A. and Mallal, S. (2009) Poor baseline immune function predicts an incomplete immune response to combination antiretroviral treatment despite sustained viral suppression. JAIDS Journal of Acquired Immune Deficiency Syndromes, 50 (3). pp. 307-313.

Roberts , S., Almeida, C., Bronke, C., Ahmad, I., Keane, N., Chopra, A., Mallal, S., John, M., Heckerman, D. and Mallal, S. (2009) Screening for HIV responses using optimal epitopes predicted by HLA-viral sequence polymorphism associations. In: 21st Annual Conference of the Australasian Society for HIV Medicine (ASHM), 9 - 11 September, Brisbane, Australia.

Phillips, E.J. and Mallal, S. (2009) Successful translation of pharmacogenetics into the clinic: The abacavir example. Molecular Diagnosis and Therapy, 13 (1). pp. 1-9.

Avila-Rios, S., Ormsby, C.E., Carlson, J.M., Valenzuela-Ponce, H., Blanco-Heredia, J., Garrido-Rodriguez, D., Garcia-Morales, C., Heckerman, D., Brumme, Z.L., Mallal, S., John, M., Espinosa, E. and Reyes-Teran, G. (2009) Unique features of HLA-mediated HIV evolution in a Mexican cohort: a comparative study. Retrovirology, 6 . p. 72.

2008

Phillips, E., Nolan, D. and Mallal, S. (2008) The Authors reply - Response to Vandekerckhove et al & Abel et al. New England Journal of Medicine, 358 (23). pp. 2515-2516.

Sabin, C., D'Arminio Monforte, A., Friis-Moller, N., Weber, R., El-Sadr, W., Reiss, P., Kirk, O., Mercie, P., Law, M., De Wit, S., Pradier, C., Phillips, A., Lundgren, J. and Mallal, S. (2008) Changes over time in risk factors for cardiovascular disease and use of Lipid‐lowering drugs in HIV‐Infected individuals and impact on myocardial infarction. Clinical Infectious Diseases, 46 (7). pp. 1101-1110.

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.

Duracinsky, M., Herrmann, S., Acquadro, C., Berzins, B., Le Coeur, S., Hyland, N., Fournier, I., McKinnon, E., Nolan, D., Mallal, S. and Chassany, O. (2008) Development of a new health-related quality of life questionnaire specific to HIV/AIDS: an international and cross cultural initiative. In: 20th Annual Australasian Society for HIV Medicine Conference, 17 - 20 September, Perth, Western Australia.

Hammond, E.L., Martin, A., Nolan, D., Metcalf, C. and Mallal, S. (2008) Eruptive haemangioma associated with HIV therapy and mitochondrial pathology. Pathology, 40 (4). pp. 425-429.

D'Arminio Monforte, A., Abrams, D., Pradier, C., Weber, R., Reiss, P., Bonnet, F., Kirk, O., Law, M., De Wit, S., Friis-Moller, N., Phillips, A., Sabin, C., Lundgren, J. and Mallal, S. (2008) HIV-induced immunodeficiency and mortality from AIDS-defining and non-AIDS-defining malignancies. AIDS, 22 (16). pp. 2143-2153.

Mallal, S., Phillips, E., Carosi, G., Molina, J-M, Workman, C., Tomazic, J., Jagel-Guedes, E., Rugina, S., Kozyrev, O., Cid, J.F., Hay, P., Nolan, D., Hughes, S., Hughes, A., Ryan, S., Fitch, N., Thorborn, D. and Benbow, A. (2008) HLA-B*5701 screening for hypersensitivity to Abacavir. The New England Journal of Medicine, 358 (6). pp. 568-579.

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.

Saag, M., Balu, R., Phillips, E.J., Brachman, P., Martorell, C., Burman, W., Stancil, B., Mosteller, M., Brothers, C., Wannamaker, P., Hughes, A., Sutherland‐Phillips, D., Mallal, S. and Shaefer, M. (2008) High sensitivity of human leukocyte antigen–B*5701 as a marker for immunologically confirmed abacavir hypersensitivity in white and black patients. Clinical Infectious Diseases, 46 (7). pp. 1111-1118.

Chessman, D., Kostenko, L., Lethborg, T., Purcell, A.W., Williamson, N.A., Chen, Z., Kjer-Nielsen, L., Mifsud, N.A., Tait, B.D., Holdsworth, R., Almeida, C.M., Nolan, D., Macdonald, W.A., Archbold, J.K., Kellerher, A.D., Marriott, D., Mallal, S., Bharadwaj, M., Rossjohn, J. and McCluskey, J. (2008) Human leukocyte Antigen Class I-restricted activation of CD8+ T Cells provides the immunogenetic basis of a systemic drug hypersensitivity. Immunity, 28 (6). pp. 822-832.

Hammond, E.L., McKinnon, E., Mallal, S. and Nolan, D. (2008) Longitudinal evaluation of cardiovascular disease-associated biomarkers in relation to abacavir therapy. AIDS, 22 (18). pp. 2540-2543.

Brumme, Z. L., Brumme, C. J., Carlson, J., Streeck, H., John, M., Eichbaum, Q., Block, B. L., Baker, B., Kadie, C., Markowitz, M., Jessen, H., Kelleher, A. D., Rosenberg, E., Kaldor, J., Yuki, Y., Carrington, M., Allen, T. M., Mallal, S., Altfeld, M., Heckerman, D. and Walker, B. D. (2008) Marked epitope- and allele-specific differences in rates of mutation in human immunodeficiency type 1 (HIV-1) Gag, Pol, and Nef cytotoxic T-lymphocyte epitopes in acute/early HIV-1 infection. Journal of Virology, 82 (18). pp. 9216-9227.

Phillips, E.J. and Mallal, S.A. (2008) Pharmacogenetics and the potential for the individualization of antiretroviral therapy. Current Opinion in Infectious Diseases, 21 (1). pp. 16-24.

Rauch, A., Nolan, D., Thurnheer, C., Fux, C.A., Cavassini, M., Chave, J-P, Opravil, M., Phillips, E., Mallal, S. and Furrer, H. (2008) Refining abacavir hypersensitivity diagnoses using a structured clinical assessment and genetic testing in the Swiss HIV Cohort Study. Antiviral Therapy, 13 (8). pp. 1019-1028.

Herrmann, S., McKinnon, E., John, M., Nolan, D., Martinez, O.P., Phillips, E. and Mallal, S. (2008) Side effects, dosing schedules, pill burden and perceived stress: interaction and influence on medication. In: 20th Annual Australasian Society for HIV Medicine Conference, 17 - 20 September, Perth, Western Australia.

Sabin, C., Worm, S., Weber, R., Reiss, P., El-Sadr, W., Dabis, F., De Wit, S., Law, M., D'Arminio Monforte, A., Friis-Moller, N., Kirk, O., Pradier, C., Weller, I., Phillips, A., Lundgren, J. and Mallal, S. (2008) Use of nucleoside reverse transcriptase inhibitors and risk of myocardial infarction in HIV-infected patients enrolled in the D:A:D study: a multi-cohort collaboration. The Lancet, 371 (9622). pp. 1417-1426.

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.

Frahm, N., Yusim, K., Suscovich, T.J., Adams, S., Sidney, J., Hraber, P., Hewitt, H.S., Linde, C.H., Kavanagh, D.G., Woodberry, T., Henry, L.M., Faircloth, K., Listgarten, J., Kadie, C., Jojic, N., Sango, K., Brown, N.V., Pae, E., Zaman, M.T., Bihl, F., Khatri, A., John, M., Mallal, S., Marincola, F.M., Walker, B.D., Sette, A., Heckerman, D., Korber, B.T.M. and Brander, C. (2007) Extensive HLA class I allele promiscuity among viral CTL epitopes. European Journal of Immunology, 37 (9). pp. 2419-2433.

Fellay, J., Shianna, K.V., Ge, D., Colombo, S., Ledergerber, B., Weale, M., Zhang, K., Gumbs, C., Castagna, A., Cossarizza, A., Cozzi-Lepri, A., De Luca, A., Easterbrook, P., Francioli, P., Mallal, S., Martinez-Picado, J., Miro, J.M., Obel, N., Smith, J. P., Wyniger, J., Descombes, P., Antonarakis, S.E., Letvin, N.L., McMichael, A.J., Haynes, B.F., Telenti, A. and Goldstein, D.B. (2007) A Whole-Genome Association Study of Major Determinants for Host Control of HIV-1. Science, 317 (5840). pp. 944-947.

Phillips, E.J. and Mallal, S. (2007) Drug hypersensitivity in HIV. Current Opinion in Allergy and Clinical Immunology, 7 (4). pp. 324-330.

Hammond, E., Mamotte, C., Nolan, D. and Mallal, S. (2007) HLA-B*5701 typing: evaluation of an allele-specific polymerase chain reaction melting assay. Tissue Antigens, 70 (1). pp. 58-61.

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.

Lucas, A., Nolan, D. and Mallal, S. (2007) HLA-B*5701 screening for susceptibility to abacavir hypersensitivity. Journal of Antimicrobial Chemotherapy, 59 (4). pp. 591-593.

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.

Herrmann, S., McKinnon, E., John, M., Hyland, N., Martinez, O.P., Cain, A., Turner, K., Coombs, A., Manolikos, C. and Mallal, S. (2007) Evidence-based, multifactorial approach to addressing non-adherence to antiretroviral therapy and improving standards of care. Internal Medicine Journal, 38 (1). pp. 8-15.

Hammond, E., Almeida, C.M., Mamotte, C., Nolan, D., Phillips, E.J., Schollaardt, T.A., Gill, M.J., Angel, J.B., Neurath, D., Li, J., Giulivi, T., McIntyre, C., Koultchitski, G., Wong, B., Reis, M., Rachlis, A., Cole, D., Chew, C.B., Neifer, S., Lalonde, R., Roger, M., Jeanneau, A. and Mallal, S. (2007) External quality assessment of HLA-B*5701 reporting: an international multicentre survey. Antiviral Therapy, 12 (7). pp. 1027-1032.

Bhattacharya, T., Daniels, M., Heckerman, D., Foley, B., Frahm, N., Kadie, C., Carlson, J., Yusim, K., McMahon, B., Gaschen, B., Mallal, S., Mullins, J.I., Nickle, D.C., Herbeck, J., Rousseau, C, Learn, G.H., Miura, T., Brander, C., Walker, B. and Korber, B. (2007) Founder effects in the assessment of HIV polymorphisms and HLA allele associations. Science, 315 (5818). pp. 1583-1586.

Herrmann, S.E., McKinnon, E., John, M. and Mallal, S. (2007) Influence of dosing regimen on adherence to antiretroviral therapy within PI and NNRTI regimens. In: 4th International AIDS Conference on HIV Pathogenesis, Treatment and Prevention, 22 - 25 July, Sydney, Australia.

Gabutero, E., Moore, C., Mallal, S., Stewart, G. and Williamson, P. (2007) Interaction between allelic variation in IL12B and CCR5 affects the development of AIDS: IL12B/CCR5 interaction and HIV/AIDS. AIDS, 21 (1). pp. 65-69.

Mallal, S. and Phillips, E. (2007) Introduction of pharmacogenetic screening to HIV clinical practice: Potential benefits and challenges. European Infectious Diseases (2). pp. 13-18.

Awadalla, P., Carlson, J., Kadie, C., Mallal, S. and Heckerman, D. (2007) Leveraging hierarchical population structure in discrete association studies. PloS one, 2 (7). pp. 1-13.

2006

Bihl, F., Frahm, N., Di Giammarino, L., Sidney, J., John, M., Yusim, K., Woodberry, T., Sango, K., Hewitt, H.S., Henry, L., Linde, C.H., Chisholm, J.V., Zaman, T.M., Pae, E., Mallal, S., Walker, B.D., Sette, A., Korber, B.T., Heckerman, D. and Brander, C. (2006) Impact of HLA-B alleles, epitope binding affinity, functional avidity, and viral coinfection on the immunodominance of virus-specific CTL responses. Journal of Immunology, 176 (7). pp. 4094-101.

Martin, A., Nolan, D., Almeida, C., Rauch, A. and Mallal, S. (2006) Predicting and diagnosing abacavir and nevirapine drug hypersensitivity: from bedside to bench and back again. Pharmacogenomics, 7 (1). pp. 15-23.

Frahm, N., Kiepiela, P., Adams, S., Linde, C.H., Hewitt, H.S., Sango, K., Feeney, M.E., Addo, M.M., Lichterfeld, M., Lahaie, M.P., Pae, E., Wurcel, A.G., Roach, T., St John, M.A., Altfeld, M., Marincola, F.M., Moore, C., Mallal, S., Carrington, M., Heckerman, D., Allen, T.M., Mullins, J.I., Korber, B.T., Goulder, P.J.R., Walker, B.D. and Brander, C. (2006) Control of human immunodeficiency virus replication by cytotoxic T lymphocytes targeting subdominant epitopes. Nature Immunology, 7 (2). pp. 173-178.

Nolan, D., Phillips, E. and Mallal, S. (2006) Efavirenz and CYP2B6 polymorphism: Implications for drug toxicity and resistance. Clinical Infectious Diseases, 42 (3). pp. 408-410.

Pett, S.L., Wand, H., Law, M.G, Arduino, R., Lopez, J.C., Knysz, B., Pereira, L.C., Pollack, S., Reiss, P., Tambussi, G. and Mallal, S. (2006) Evaluation of subcutaneous proleukin (Interleukin-2) in a randomized international trial (ESPRIT): Geographical and gender differences in the baseline characteristics of participants. HIV Clinical Trials, 7 (2). pp. 70-85.

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.

Nolan, D., Gaudieri, S. and Mallal, S. (2006) Host genetics and viral infections: Immunology taught by viruses, virology taught by the immune system. Current Opinion in Immunology, 18 (4). pp. 413-421.

Mallal, S. (2006) Host genetics unplugged: Removing the camouflage of viral adaptation. Current Opinion in HIV and AIDS, 1 (3). pp. 218-219.

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.

Rauch, A., Nolan, D., Martin, A., McKinnon, E., Almeida, C. and Mallal, S. (2006) Prospective genetic screening decreases the incidence of Abacavir hypersensitivity reactions in the Western Australian HIV cohort study. Clinical Infectious Diseases, 43 (1). pp. 99-102.

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.

Martin, A.M., Krueger, R., Almeida, C.A., Nolan, D., Phillips, E. and Mallal, S. (2006) A sensitive and rapid alternative to HLA typing as a genetic screening test for abacavir hypersensitivity syndrome. Pharmacogenetics and Genomics, 16 (5). pp. 353-357.

2005

Vidal, F., Peraire, J., Domingo, P., Broch, M., Knobel, H., Pedrol, E., Dalmau, D., Viladés, C., Sambeat, M.A., Gutiérrez, C., Richart, C. and Mallal, S. (2005) Lack of association of SDF-1 3'A variant allele with long-term nonprogressive HIV-1 infection is extended beyond 16 years. JAIDS Journal of Acquired Immune Deficiency Syndromes, 40 (3). pp. 276-279.

Gaudieri, S., Lucas, M., Freitas, E., Naidoo, K., Park, L., Pfafferott, K., Moore, C., Jeffrey, G., Cheng, W., Rauch, A., Herrmann, S. and Mallal, S. (2005) Adaptation of Hepatitis C virus to HLA-restricted responses in an Australian host population. In: 12th International Symposium on Hepatitis C and Related Viruses, 2 - 6 October, Montreal, Canada.

Nolan, D., Reiss, P. and Mallal, S. (2005) Adverse effects of antiretroviral therapy for HIV infection: a review of selected topics. Expert Opinion on Drug Safety, 4 (2). pp. 201-218.

Petoumenos, K., Ringland, C., Goodman, R., Gotowski, M., Couldwell, D., Lewis, L., Austin, D., Block, M., Quan, D., Gowers, A., Brown, K.R., Skobalj, N. and Mallal, S. (2005) Antiretroviral treatment change among HIV, hepatitis B virus and hepatitis C virus co-infected patients in the Australian HIV Observational Database. HIV Medicine, 6 (3). pp. 155-163.

Nolan, D. and Mallal, S. (2005) Antiretroviral-therapy-associated lipoatrophy: current status and future directions. Sexual Health, 2 (3). pp. 153-163.

Gaudieri, S., Nolan, D., McKinnon, E., Witt, C.S., Mallal, S. and Christiansen, F.T. (2005) Associations between KIR epitope combinations expressed by HLA-B/-C haplotypes found in an HIV-1 infected study population may influence NK mediated immune responses. Molecular Immunology, 42 (4). pp. 557-560.

John, M. and Mallal, S. (2005) CTL responses to HIV and SIV: wrestling with smoke. Nature Immunology, 6 (3). pp. 232-234.

Lucas, A.D., Gaudieri, S., Rauch, A., Nolan, D. and Mallal, S. (2005) Cellular tropism of HIV-1 mediated and contrained by coreceptor dependencies. Journal of Viral Entry, 1 (1). pp. 17-27.

Phillips, E.J., Wong, G., Kaul, R., Shahabi, K., Nolan, D., Knowles, S.R., Martin, A.M., Mallal, S. and Shear, N.H. (2005) Clinical and immunogenetic correlates of abacavir hypersensitivity. AIDS, 19 (9). pp. 979-981.

Allen, T.M., Yu, X.G., Kalife, E.T., Reyor, L.L., Lichterfeld, M., John, M., Cheng, M., Allgaier, R.L., Mui, S., Frahm, N., Alter, G., Brown, N.V., Johnston, M.N., Rosenberg, E.S., Mallal, S.A., Brander, C., Walker, B.D. and Altfeld, M. (2005) De Novo generation of escape Variant-specific CD8+ T-Cell responses following Cytotoxic T-Lymphocyte escape in chronic Human Immunodeficiency Virus Type 1 Infection. Journal of Virology, 79 (20). pp. 12952-12960.

Martin, A., Nolan, D., Rauch, A., Almeida, C., McKinnon, E. and Mallal, S. (2005) Genetic screening for Abacavir hypersensitivity (ABC-HSR) in the Western Australian cohort: Prospective data and novel diagnostic approaches. In: 17th Annual Conference of the Australasian Society for HIV Medicine (ASHM 2005), 24 - 27 August 2005, Hobart, Tasmania.

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

Feeney, M.E., Tang, Y., Pfafferott, K., Roosevelt, K.A., Draenert, R., Trocha, A., Yu, X.G., Verrill, C., Allen, T., Moore, C., Mallal, S., Burchett, S., McIntosh, K., Pelton, S.I., St. John, M.A., Hazra, R., Klenerman, P., Altfeld, M., Walker, B.D. and Goulder, P.J.R. (2005) HIV-1 viral escape in infancy followed by emergence of a variant-specific CTL response. Journal of Immunology, 174 (12). pp. 7524-7530.

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

Martin, A.M., Nolan, D. and Mallal, S. (2005) HLA-B*5701 typing by sequence-specific amplification: validation and comparison with sequence-based typing. Tissue Antigens, 65 (6). pp. 571-574.

Gillett, M.J., Cameron, P.U., Nguyen, H.V., Hurley, D.M. and Mallal, S.A. (2005) Iatrogenic Cushingʼs syndrome in an HIV-infected patient treated with ritonavir and inhaled fluticasone. AIDS, 19 (7). pp. 740-741.

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., Almeida, C., Nolan, D., Cameron, P., Purcell, A., Chessman, D., McCluskey, J., Phillips, E. and Mallal, S. (2005) Involvement of metabolic and immune responses in the pathogenesis of Abacavir hypersensitivity reaction. In: 17th Annual Conference of the Australasian Society for HIV Medicine (ASHM 2005), 24 - 27 August 2005, Hobart, Tasmania.

Gaudieri, S., DeSantis, D., McKinnon, E., Moore, C., Nolan, D., Witt, C.S., Mallal, S.A. and Christiansen, F.T. (2005) Killer immunoglobulin-like receptors and HLA act both independently and synergistically to modify HIV disease progression. Genes and Immunity, 6 (8). pp. 683-690.

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.

Allen, T.M., Altfeld, M., Geer, S.C., Kalife, E.T., Moore, C., O'Sullivan, K.M., DeSouza, I., Feeney, M.E., Eldridge, R.L., Maier, E.L., Kaufmann, D.E., Lahaie, M.P., Reyor, L., Tanzi, G., Johnston, M.N., Brander, C., Draenert, R., Rockstroh, J.K., Jessen, H., Rosenberg, E.S., Mallal, S.A. and Walker, B.D. (2005) Selective escape from CD8+ T-Cell responses represents a major driving force of Human Immunodeficiency Virus Type 1 (HIV-1) sequence diversity and reveals constraints on HIV-1 evolution. Journal of Virology, 79 (21). pp. 13239-13249.

Vidal, F., Viladés, C., Domingo, P., Broch, M., Pedrol, E., Dalmau, D., Knobel, H., Peraire, J., Gutiérrez, C., Sambeat, M., Fontanet, À., Deig, E., Cairó, M., Montero, M., Richart, C. and Mallal, S. (2005) Spanish HIV-1-infected long-term nonprogressors of more than 15 years have an increased frequency of the CX3CR1 249I variant allele. JAIDS Journal of Acquired Immune Deficiency Syndromes, 40 (5). pp. 527-531.

Leslie, A., Kavanagh, D., Honeyborne, I., Pfafferott, K., Edwards, C., Pillay, T., Hilton, L., Thobakgale, C., Ramduth, D., Draenert, R., Le Gall, S., Luzzi, G., Edwards, A., Brander, C., Sewell, A.K., Moore, S., Mullins, J., Moore, C., Mallal, S., Bhardwaj, N., Yusim, K., Phillips, R., Klenerman, P., Korber, B., Kiepiela, P., Walker, B. and Goulder, P. (2005) Transmission and accumulation of CTL escape variants drive negative associations between HIV polymorphisms and HLA. Journal of Experimental Medicine, 201 (6). pp. 891-902.

2004

Herrmann, S., McKinnon, E. and Mallal, S. (2004) Combining adherence monitoring with patient education in the Royal Perth Hospital Immunology Outpatient Clinic. In: 16th Annual Conference of the Australasian Society for HIV Medicine, 2 - 4 September, Canberra, Australia.

Nolan, D. and Mallal, S. (2004) Complications associated with NRTI therapy: Update on clinical features and possible pathogenic mechanisms. Antiviral Therapy, 9 . pp. 849-863.

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.

Mallal, S. (2004) HIV, Now a chronic disease. In: 29th Australian & New Zealand Intensive Care Society Annual Scientific Meeting on Intensive Care, 7 - 10 October 2004, Melbourne, VIC.

Nolan, D., Gaudieri, S., John, M. and Mallal, S. (2004) Impact of host genetics on HIV disease progression and treatment: New conflicts on an ancient battleground. AIDS, 18 (9). pp. 1231-1240.

Martin, A.M., Nolan, D., Gaudieri, S., Phillips, E. and Mallal, S. (2004) Pharmacogenetics of antiretroviral therapy: genetic variation of response and toxicity. Pharmacogenomics, 5 (6). pp. 643-655.

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.M., Smith, D., Carr, A., Hoy, J., Chuah, J., Mallal, S., Law, M., Clements, M. and Cooper , D.A. (2004) Progression of Lipodystrophy (LD) with continued thymidine analogue usage: Long-term Follow-Up from a randomized clinical trial (The PIILR Study). HIV Clinical Trials, 5 (4). pp. 192-200.

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.

Allen, T.M., Altfeld, M., Yu, X.G., O'Sullivan, K.M., Lichterfeld, M., Le Gall, S., John, M., Mothe, B.R., Lee, P.K., Kalife, E.T., Cohen, D.E., Freedberg, K.A., Strick, D.A., Johnston, M.N., Sette, A., Rosenberg, E.S., Mallal, S.A., Goulder, P.J.R., Brander, C. and Walker, B.D. (2004) Selection, transmission, and reversion of an antigen-processing cytotoxic T-lymphocyte escape mutation in Human Immunodeficiency Virus Type 1 infection. Journal of Virology, 78 (13). pp. 7069-7078.

Nolan, D. and Mallal, S. (2004) The role of nucleoside reverse transcriptase inhibitors in the fat redistribution syndrome. Journal of HIV Therapy, 9 (2). pp. 34-40.

2003

Nolan, R., Martin, A.M., Nolan, D., Gaudieri, S., Almeida, C., Carvalho, F., Witt, C., Sayer, D., Herrmann, S., Christiansen, F.T. and Mallal, S. (2003) Abacavir Hypersensitivity Syndrome: Clarifying genetic associations by including the presence of an abacavir specific immune response in diagnostic criteria. In: 15th Annual Conference of the Australian Society for HIV Medicine, 22 - 25 October, Cairns, Australia.

Martin, A.M., Hammond, E., Nolan, D., Pace, C., den Boer, M., Taylor, L., Moore, H., Martinez, O.P., Christiansen, F.T. and Mallal, S. (2003) Accumulation of mitochondrial DNA mutations in Human Immunodeficiency Virus–infected patients treated with Nucleoside-analogue Reverse-transcriptase inhibitors. American Journal of Human Genetics, 72 (3). pp. 549-560.

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.

Hammond, E.L., Sayer, D., Nolan, D., Walker, U.A., de Ronde, A., Montaner, J.S.G., Côté, H.C.F., Gahan, M.E., Cherry, C.L., Wesselingh, S.L., Reiss, P. and Mallal, S. (2003) Assessment of precision and concordance of quantitative mitochondrial DNA assays: A collaborative international quality assurance study. Journal of Clinical Virology, 27 (1). pp. 97-110.

Amin, J., Moore, A., Carr, A., French, M.A., Law, M., Emery, S., Cooper, D.A., Kotsiou, G., Norrito, L., Dwyer, D., Packham, D., Fordham, M., Garsia, R., Baker, D., Doong, N.C., Quan, D., Beveridge, A., Genn, W., Quin, J., Mulholland, J., Sowden, D., Rawlinsen, M., Rebic, D., Street, A., De Graaf, B., Roney, J., Bryant, M., McCormack, C., Hoy, J.N., Shaw, D.V., Ferguson, W., Waddell, R., Papanaoum, K., French, M.R., Scull, N., Todhunter, L., Mallal, S., James, R. and Foreman, E. (2003) Combined analysis of Two-Year Follow-up from two open-label randomized trials comparing efficacy of three nucleoside reverse transcriptase inhibitor backbones for previously untreated HIV-1 nfection: OzCombo 1 and 2. HIV Clinical Trials, 4 (4). pp. 252-261.

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.

Nolan, D., Watts, G.F., Herrmann, S.E., French, M.A., John, M. and Mallal, S. (2003) Endothelial function in HIV-infected patients receiving protease inhibitor therapy: does immune competence affect cardiovascular risk? QJM, 96 (11). pp. 825-832.

Miller, J., Carr, A., Emery, S., Law, M., Mallal, S., Baker, D., Smith, D., Kaldor, J. and Cooper, D.A. (2003) HIV lipodystrophy: Prevalence, severity and correlates of risk in Australia. HIV Medicine, 4 (3). pp. 293-301.

Lincoln, D., Petoumenos, K., Dore, G.J., Finlayson, R., Clemons, J., Ellis, D., Baker, D., Kidd, J., McFarlane, R., Law, M., Smith, D., Huffam, D., Savage, J., Morgan, S., Knibbs, P., Rogers, G., Ree, H., Magon, H., Sowden, D., Walker, A., Orth, D., Lister, G.A., Chuah, J., James, R., Fankhauser, W., Dickson, B., Bradford, D., Wilson, C., Fairley, K., Roth, N., Eu, B., Strecker, S., Russell, D., Wood, H., Maijch, A., Hoy, J., Pierce, A., McCormack, C., Watson, K., Anderson, J.S., Moore, R., McGovern, G., McNair, R., Medland, N., Daye, J. and Mallal, S. (2003) HIV/HBV and HIV/HCV coinfection, and outcomes following highly active antiretroviral therapy. HIV Medicine, 4 (3). pp. 241-249.

Telenti, A., Beckmann, J.S. and Mallal, S. (2003) HLA and HIV: Modeling adaptation to moving targets. The Pharmacogenomics Journal, 3 (5). pp. 254-256.

Nolan, D., Hammond, E., Martin, A., Taylor, L., Herrmann, S., McKinnon, E., Metcalf, C., Latham, B. and Mallal, S. (2003) Mitochondrial DNA depletion and morphologic changes in adipocytes associated with nucleoside reverse transcriptase inhibitor therapy. AIDS, 17 (9). pp. 1329-1338.

Pace, C.S., Martin, A.M., Hammond, E.L., Mamotte, C.D.S., Nolan, D.A. and Mallal, S.A. (2003) Mitochondrial proliferation, DNA depletion and adipocyte differentiation in subcutaneous adipose tissue of HIV-positive HAART recipients. Antiviral Therapy, 8 . pp. 323-331.

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.

Nolan, D., Gaudieri, S. and Mallal, S. (2003) Pharmacogenetics: A practical role in predicting antiretroviral drug toxicity? Journal of HIV therapy, 8 (2). pp. 36-41.

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.

Nolan, D. and Mallal, S. (2003) Thymidine analogue-sparing highly active antiretroviral therapy (HAART). Journal of HIV therapy, 8 (1). pp. 1-5.

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.

Martin, A., Nolan, D., Gaudieri, S., Almeida, C., Carvalho, F., Witt, C., Sayer, D., Nolan, R., Herrmann, S., Christiansen, F. and Mallal, S. (2003) Updated experience of abacavir hypersensitivity genetic testing within the major histocompatibility complex (MHC): addressing diagnostic precision and predictive value. In: 5th International Workshop on Adverse Drug Reactions and Lipodystrophy in HIV, 8 - 11 July, Paris, France.

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.

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. and Mallal, S. (2002) Hyperlactatemia syndromes in people with HIV infection. Current Opinion in Infectious Diseases, 15 (1). pp. 23-29.

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.

Hammond, E., Nolan, D., McKinnon, E. and Mallal, S. (2002) No evidence of mitochondrial DNA depletion in peripheral white blood cells after three to 12 months of HAART. In: XIV International AIDS conference, 7 - 12 July 2002, Barcelona, Spain.

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.

Petoumenos, K., Austin, D., Baker, D., Block, M., Brown, K., Carr, A., Cooper, D., Couldwell, D., Ellis, D., Finlayson, R., Gorton, C., Gowers, A., Keeffe, N., Kidd, J., Law, M., Liang, M.T., McFarlane, R., Mutimer, K., Miller, J., O'Connor, C., Quan, D., Rooney, P., Taylor, S., Smith, D., Wheatley, D., Knibbs, P., Huffam, S., Morgan, S., Savage, J., Bradford, D., Chuah, J., Dickson, B., Fankhauser, W., Lister, G., Magon, H., Orth, D., Rawlinson, M., Ree, H., Sowden, D., Walker, A., Wilson, C., Anderson, J., Bal, J., Daye, J., Eu, B., Fairely, C.K., Hoy, J., McCormack, C., McGovern, G., McNair, R., Medland, N., Mijch, A., Moore, R., Pierce, A., Roth, N., Russell, D., Strecker, S., Watson, K., Wood, H., Cain, A., French, M., Mallal, S., Maxwell, D., Moore, C. and Skett, J. (2002) Rates of combination antiretroviral treatment change in Australia, 1997-2000. HIV Medicine, 3 (1). pp. 28-36.

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.

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.

Hammond, E., Nolan, D., Martin, A., Sayer, D. and Mallal, S. (2002) A real-time PCR-based method for detecting mitochondrial DNA depletion: Assessment of assay precision. In: Keystone Symposia on Mitochondria and Pathogenesis, 6 - 12 April 2002, Copper Mountain, Colorado.

2001

Nolan, D., John, M. and Mallal, S. (2001) Antiretoviral therapy and the lipodystrophy syndrome, part 2: Concepts in aetiopathogenesis. Antiviral Therapy, 6 . pp. 145-160.

John, M., Nolan, D. and Mallal, S. (2001) Antiretroviral therapy and the lipodystrophy syndrome. Antiviral Therapy, 6 . pp. 9-20.

Murray, R., Mallal, S., Heath, C. and French, M. (2001) Cerebral mycobacterium avium infection in an HIV-Infected patient following immune reconstitution and cessation of therapy for disseminated mycobacterium avium complex infection. European Journal of Clinical Microbiology and Infectious Diseases, 20 (3). pp. 199-201.

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.

Ioannidis, J.P.A., Rosenberg, P.S., Goedert, J.J., Ashton, L.J., Benfield, T.L., Buchbinder, S.P., Coutinho, R.A., Eugen-Olsen, J., Gallart, T., Katzenstein, T.L., Kostrikis, L.G., Kuipers, H., Louie, L.G., Mallal, S.A., Margolick, J.B., Martinez, O.P., Meyer, L., Michael, N.L., Operskalski, E., Pantaleo, G., Rizzardi, G.P., Schuitemaker, H., Sheppard, H.W., Stewart, G.J., Theodorou, I.D., Ullum, H., Vicenzi, E., Vlahov, D., Wilkinson, D., Workman, C., Zagury, J-F and O'Brien, T.R. (2001) Effects of CCR5-Δ 32, CCR2-64I, and SDF-1 3′A Alleles on HIV-1 Disease Progression: An International Meta-Analysis of Individual-Patient Data. Annals of Internal Medicine, 135 (9). pp. 782-795.

Nolan, D. and Mallal, S. (2001) Effects of sex and race on lipodstrophy pathogenesis. Journal of HIV therapy, 6 (1). pp. 32-36.

Nolan, D. and Mallal, S. (2001) Getting to the HAART of insulin resistance. AIDS, 15 (15). pp. 2037-2041.

Carr, A., Hudson, J., Chuah, J., Mallal, S., Law, M., Hoy, J., Doong, N., French, M., Smith, D. and Cooper, D.A. (2001) HIV protease inhibitor substitution in patients with lipodystrophy: A randomized, controlled, open-label, multicentre study. AIDS, 15 (14). pp. 1811-1822.

Mallal, S., Hammond, E., Martin, A. and Nolan, D.A. (2001) Mitochondrial DNA depletion in adipocytes associated with NRTI treatment in HIV infected individuals. In: 8th European Conference of Clinical Aspects and Treatment of HIV-Infection, 27 - 31 October 2001, Athens, Greece.

Hammond, E.L., Martin, A., Taylor, L., John, M., Nolan, D.A. and Mallal, S. (2001) Mitochondrial DNA depletion, assessed by real-time PCR-based quantitative assay in subcutaneous fat of HIV infected patients: Evidence for a role in the aetiology of fat wasting. In: 4th International Conference on Nutrition and HIV infection/2nd European Workshop on Lipodystrophy, 19 - 21 April 2001, Cannes, France.

Nolan, D., Hammond, E., Martin, A., Metcalf, C., Latham, B., John, M. and Mallal, S. (2001) NRTI therapy is associated with mitochondrial DNA depletion, increased mitochondrial biogenesis and subcutaneous fat wasting in HIV infected patients. In: 1st IAS Conference on HIV Pathogenesis and Treatment, 8 - 11 July 2001, Buenos Aires, Argentina.

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.

Rooney, P., Taylor, S., Couldwell, D., Austin, D., Block, M., Quan, D., Gowers, A., O'Conner, C., Gorton, C., Allen, D., Mulhall, B., Mutimer, K., Smith, D., Keeffe, N., Cooper, D., Carr, A., Miller, J., Finlayson, R., Wheatley, D., Ellis, D., Baker, D., Kidd, J., McFarlane, R., Liang, M.T., Brown, K., Petoumenos, K., Law, M., Huffam, S., Savage, J., Morgan, S., Knibbs, P., Sowden, D., Rawlinson, M., Walker, A., Orth, D., Lister, G., Chuah, J., Fankhauser, W., Dickson, B., Bradford, D., Wilson, C., Ree, H., Magon, H., Fairley, C.K., Roth, N., Eu, B., Strecker, S., Russel, D., Wood, H., Mijch, A., Hoy, J., Pierce, A., McCormack, C., Watson, K., Anderson, J., Moore, R., Russell, D., McGovern, G., McNair, R., Bal, J., Medland, N., Daye, J., Mallal, S., French, M., Skett, J., Moore, C., Maxwell, D. and Cain, A. (2001) Time trends in antiretroviral treatment use in Australia, 1997-2000. Venereology, 14 (4). pp. 162-168.

2000

Gillieatt, S.J. and Mallal, S.A. (2000) Uptake of HIV testing and treatment in an isolated population with access to free and universal healthcare. International Journal of STD & AIDS, 11 (5). pp. 303-312.

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.

Moore, C., John, M. and Mallal, S. (2000) Costs associated with management of lipodystrophy syndrome. In: Fourth International Cohorts Meeting on HIV Observational Databases, 30 - 31 March 2000, Marbella, Spain.

Nolan, D., Mallal, S. and John, M. (2000) Developing tools for investigation of mitochondrial toxicity in the clinical setting. In: Forum for Collaborative HIV Research: Mitochondrial Toxicity and HIV Disease Meeting, 5 - 6 June 2000, Washington, DC.

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.

Gizzarelli, L., Hammond, E., Martin, A., Nolan, D. and Mallal, S. (2000) Level of heteroplasmy DNA detection in mtDNA using SSCP and DNA sequencing. In: 12th Annual Conference of the Australian Society for HIV Medicine, 12 - 14 October 2000, Melbourne, Australia.

Mallal, S., Nolan, D., John, M., Chong, D., Metcalf, C. and Latham, B. (2000) Light and electron microscopy findings in subcutaneous fat antiretroviral treated and HIV-infected patients. In: XIII International AIDS Conference, 9 - 14 July 2000, Durban, South Africa.

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.

Law, M.G. and Mallal, S. (2000) Rates of change of combination antiretroviral treatments in Australia, 1997-2000. In: 5th International Congress on Drug Therapy in HIV Infection, 22 - 26 October 2000, Glasgow, U.K.

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.

Petoumenos, K. and Mallal, S. (2000) Use of combination antiretroviral treatments in Australia, 1997-2000. In: 12th Annual Conference of the Australian Society for HIV Medicine, 12 - 14 October 2000, Melbourne, Australia.

1999

Murray, R.J. and Mallal, S. (1999) Cerebral "MAC-oma" in a HIV infected patient following immune reconstitution and cessation of therapy for disseminated MAC infection. In: 11th Annual Conference of the Australian Society for HIV Medicine, 9 - 11 December 1999, Perth, Western Australia.

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.

Cooper, D., Mallal, S., Beveridge, A., Shaw, D., Haberi, M. and Viswalingam, A. (1999) Comparison of antiviral response with abacavir/combivir to indinavir/combivir in therapy naive adults at 48 weeks (CNA3005). In: 11th Annual Conference of the Australian Society for HIV Medicine, 9 - 11 December 1999, Perth, Western Australia.

John, M., Rowland-Jones, S., Moore, C. and Mallal, S. (1999) Control of HIV replication by CTL responses. Journal of HIV Therapy, 4 (1). pp. 1-7.

Tay-Kearney, M.L., French, M. and Mallal, S. (1999) Cytomegaloirus retinitis in transition. Australian and New Zealand Journal of Ophthalmology, 27 (1). p. 89.

Mallal, S. (1999) Disorders of fat distribution in patients on Anti-retroviral therapy. In: 11th Annual Conference of the Australian Society for HIV Medicine, 9 - 11 December 1999, Perth, Western Australia.

Clegg , A.O., Mallal, S., Moore, C., Badhwar, P. and Stewart, G.J. (1999) Effect of CCR5 promoter polymorphisms on HIV-1 disease progression. In: 11th Annual Conference of the Australian Society for HIV Medicine, 9 - 11 December 1999, Perth, Western Australia.

Mallal, S. (1999) Efficacy, tolerability, convenience, cost or toxicity - what drives the uptake of and adherence to antiretrovirals? In: Australasian Pharmaceutical Science Association Annual Conference, 28 November - 1 December 1999, Fremantle, Western Australia.

Herrmann, S., Watts, G.F., Moore, C.B., Mallal, S. and French, M. (1999) Endothelial function in dyslipidaemic HIV-1 infected patients on protease inhibitors: Significance of immune reconstitution. In: 11th Annual Australasian Society for HIV Medicine Conference, 9 - 11 December, Perth, Western Australia.

Carr, A., Hudson, J., Law, M., Chuah, J., Hoy, J., Mallal, S., Smith, D. and Cooper, D. (1999) The PIILR study - An open study of the reversibility of HIV protease inhibitor induced lipodystrophy in HIV-1 infected patients. In: 11th Annual Conference of the Australian Society for HIV Medicine, 9 - 11 December 1999, Perth, Western Australia.

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.

Anderson, J., Fagan, D., Duncombe, C., Bloch, M., Law, M.G., Mallal, S., Cui, J., Grulich, A., Roth, N. and Smith, D. (1999) Trends in antiretroviral treatment for people with HIV in Australia: an observational database pilot study. Venereology, 12 (3). pp. 97-103.

Price, P., Witt, C., Allock, R., Sayer, D., Garlepp, M., Kok, C.C., French, M., Mallal, S. and Christiansen, F. (1999) The genetic basis for the association of the 8.1 ancestral haplotype (A1, B8, DR3) with multiple immunopathological diseases. Immunological Reviews, 167 (1). pp. 257-274.

Roff, G., McCarthy, M., Moore, C. and Mallal, S. (1999) The value of dual-energy X-ray absorptiometry (DEXA) scans in monitoring HIV patients on protease inhibitors. Nuclear Medicine Communications, 20 (4). pp. 403-404.

1998

John, M., Mallal, S. and French, M. (1998) Emerging toxicity of long term anti-retroviral therapy. Journal of HIV Therapy, 3 (3). pp. 58-63.

French, M., Lenzo, N., John, M., Mallal, S. and Price, P. (1998) Highly active antiretroviral therapy. The Lancet, 351 (9108). pp. 1056-1057.

French, M., Lenzo, N., John, M., Mallal, S., Flexman, J. and Price, P. (1998) 'Immune restoration disease' in immunodeficient HIV-infected patients treated with potent anti-retroviral therapy. In: 12th World AIDS Conference, 28 June - 3 July 1998, Geneva, Switzerland.

Moore, C., Herrmann, S., Mallal, S., Watts, G.F., Lenzo, N., French, M. and van Bockxmeer , F. (1998) Peripheral lipodystrophy, dyslipidaemia and insulin resistance in patients receiving HIV protease inhibitors. In: Australian Diabetes Society Meeting, 26 - 28 August, Perth, Western Australia.

Moore, C., Herrmann, S., Mallal, S., Watts, G.F., Lenzo, N., French, M. and van Bockxmeer, F. (1998) Peripheral lipodystrophy, dyslipidamia and insulin resistance in patients receiving HIV protease inhibitors. In: Annual Scientific Meeting of the Australian Diabetes Society, 26 - 28 August 1998, Burswood Convention Centre, Perth.

Mallal, S.A. (1998) The Western Australian HIV cohort study. Journal of Acquired Immune Deficiency Syndromes and Human Retrovirology : official publication of the International Retrovirology Association, 17 (Supp. 1). pp. 23-27.

Waterer, G.W., Giele, A., Lavis, N.J., Kay, I.D., Palladino, S., French, M.A., Wilson, R., Heath, C.H. and Mallal, S. (1998) The clinical utility of polymerase chain reaction for the detection of Pneumocystis Carinii using a clinical diagnosis as the gold standard. In: Annual Scientific Meeting of the Thoracic Society of Australia and New Zealand: Frontiers of Respiratory Medicine, 15 - 18 March 1998, Adelaide, S.A..

1997

Dore, G.J., Hoy, J.F., Mallal, S.A., Li, Y., Mijch, A.M., French, M.A., Cooper, D.A. and Kaldor, J.M. (1997) Trends in incidence of AIDS illnesses in Australia from 1983 to 1994: The Australian AIDS cohort. Journal of Acquired Immune Deficiency Syndromes and Human Retrovirology : official publication of the International Retrovirology Association, 16 (1). pp. 39-43.

Mallal, S. (1997) Randomised trial of addition of lamivudine or lamivudine plus loviride to zidovudine-containing regimens for patients with HIV-1 infection: The CAESAR trial. The Lancet, 349 (9063). pp. 1413-1421.

1996

Dore, G.J., Li, Y., Grulich, A.E., Hoy, J.F., Mallal, S.A., Mijch, A.M., French, M.A., Cooper, D.A. and Kaldor, J.M. (1996) Declining incidence and later occurrence of Kaposi's sarcoma among persons with AIDS in Australia: The Australian AIDS cohort. AIDS, 10 (12). pp. 1401-1406.

Kay, I., Palladino, S., Wilson, R., Mallal, S. and Giele, A. (1996) Detection of pneumocystis carinii using polymerase chain reaction. In: Australian and New Zealand Microbiology Societies Joint Scientific Meeting and Exhibition, September 1996, Christchurch, New Zealand.

Mallal, S. (1996) Predicting AIDS progression. In: Australasian Society for HIV Medicine 8th Annual Conference: Preventing Transmission, Promoting Health, 14 - 17 November 1996, Australian Jockey Club, Sydney.

Dore, G.J., Hoy, J.F., Mallal, S., Li, Y., Mijch, A.M., French, M.A., Cooper, D.A. and Kaldor, J.M. (1996) Toxoplasmosis risk factors among people with AIDS in Australia: Australian cohort study. In: Annual Scientific Meeting of the Australasian Society for Infectious Diseases, 27 - 30 April 1996, Broome, W.A.

Dore, G., Kaldor, J., Hoy, J., Mallal, S., Li, Y., Mijch, A., French, M.A.H. and Cooper, D. (1996) Trends in AIDS-related illness in Australia: The Australian AIDS cohort. In: XI International Conference on AIDS, 7 - 12 July 1996, Vancouver, Canada.

French, M.A.H. and Mallal, S. (1996) The clinical utility of measuring cutaneous delayed-type hypersensitivity (DTH) responses in HIV-infected patients. In: XI International Conference on AIDS, 7 - 12 July 1996, Vancouver, Canada.

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.

Dyer, J., French, M. and Mallal, S. (1995) Cerebral mass lesions due to cytomegalovirus in patients with AIDS: Report of two cases. Journal of Infection, 30 (2). pp. 147-151.

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.

Cameron, P.U., Mallal, S.A., Witt, C., French, M.A.H. and Dawkins, R.L. (1995) MHC ancestral haplotypes containing HLA-B8 and B35 are associated with different patters of HIV-1 disease progression and complications. In: 2nd National Conference on Human Retroviruses and Related Infections, 27 January - 2 Feb 1995, Washington DC.

Tay, G.K., Witt, C.S., Christiansen, F.T., Charron, D., Baker, D., Herrmann, R., Smith, L.K, Diepeveen, D., Mallal, S. and McCluskey, J. (1995) Matching for MHC haplotypes results in improved survival following unrelated bone marrow transplantation. Bone Marrow Transplantation, 15 (3). pp. 381-385.

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.

Fernández-Cruz, E., Lang, J-M, Jos Frissen, P.H., Furrier, V., Châateauvert, M., Boucher, C.A.B., Dowd, P., Stevens, J. and Mallal, S. (1995) Zidovudine plus interferon-[alpha] versus zidovudine alone in HIV-infected symptomatic or asymptomatic persons with CD4+ cell counts > 150x106/l: results of the Zidon trial. AIDS, 9 (9). pp. 1025-1035.

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

Dyer, J.R., French, M.A.H. and Mallal, S. (1994) Cerebral mass lesions due to cytomegalovirus in patients with AIDS: Report of two cases. In: Annual Scientific Meeting of the Australian Society for Infectious Diseases, March 1994, Canberra, A.C.T.

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.

Taylor, M.L., Witt, C., Mallal, S., Hollingsworth, P.N., Gillon, R., Stewart, G.A. and Thompson, P.J. (1994) HLA typing in aspirin-sensitive asthmatics. In: Annual Scientific Meeting of the Thoracic Society of Australia and New Zealand, 11 - 14 April 1994, Hamilton Island, Queensland.

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

Mallal, S. (1993) HIV infection: The host-immunogenetics and natural history. In: 38th Annual Scientific Meeting of the Royal Australasian College of Pathologists of Australasia, 29 September 1993, Perth, Western Australia.

Cooper, D.A., Gatell, J.M., Kroon, S., Clumeck, N., Millard, J., Goebel, F-D, Bruun, J.N., Stingl, G., Melville, R.L., Gonzalez-Lahoz, J., Stevens, J.W., Fiddian, A.P. and Mallal, S. (1993) Zidovudine in persons with asymptomatic HIV infection and CD4+ cell counts greater than 400 per cubic millimeter. New England Journal of Medicine, 329 (5). pp. 297-303.

1992

Gillieatt, S.J., Mallal, S.A., French, M.A. and Dawkins, R.L. (1992) Epidemiology of late presentation of HIV infection in Western Australia. The Medical Journal of Australia, 157 (2). pp. 117-118.

Mallal, S. and French, M.A.H. (1992) Delayed type hypersensitivity (DTH) responses to tuberculin after zidovudine in immunodeficient HIV infected patients predict subsequent mycobacterium avium intracellulare infection. In: 1st International Congress of Drug Therapy in HIV infection, 9 - 12 November 1992, Glasgow, U.K.

Mallal, S. and French, M.A.H. (1992) Delayed type hypersensitivity (DTH) responses to tuberculin after zidovudine in immunodeficient HIV infected patients predict subsequent mycobacterium avium intracellulare infection. In: Annual Conference of the Australasian Society for HIV Medicine, 1992, Sydney, Australia.

Mallon, D.F., Shearwood, W., Mallal, S.A., French, M.A. and Dawkins, R.L. (1992) Exposure to blood borne infections in health care workers. Medical Journal of Australia, 157 (9). pp. 592-595.

French, M.A.H., Abraham, L.J., Mallal, S.A., Degli-Esposti, M.A. and Dawkins, R.L. (1992) MHC genes and HIV. Today's Life Science, 4 (6). pp. 32-36.

French, M.A.H., Mallal, S. and Dawkins, R.L. (1992) Zidovudine-induced restoration of cell-mediated immunity to mycobacteria in immunodeficient HIV-infected patients. AIDS, 6 (11). pp. 1293-1297.

1991

Christiansen, F.T., Zhang, W.J., Griffiths, M., Mallal, S.A. and Dawkins, R.L. (1991) Major histocompatibility complex (MHC) complement deficiency, ancestral haplotypes and systemic lupus erythematosus (SLE): C4 deficiency explains some but not all of the influence of the MHC. The Journal of Rheumatology, 18 (9). pp. 1350-1358.

Mallal, S., French, M.A.H. and Dawkins, R.L. (1991) Heterogeneity of HIV induced cellular immune defects predisposing to opportunistic infections. In: Australasian Society for HIV Medicine. Annual Scientific Meeting, November 1991, Wollongong, N.S.W.

1990

Mallal, S., Cameron, P.U., French, M.A.H. and Dawkins, R.L. (1990) MHC genes and HIV infection. The Lancet, 335 (8705). pp. 1591-1592.

Cameron, P.U., Mallal, S.A., French, M.A.H. and Dawkins, R.L. (1990) Major histocompatibility complex genes influence the outcome of HIV infection. Human Immunology, 29 (4). pp. 282-295.

Mallal, S., Cameron, P.U., French, M.A.H. and Dawkins, R.L. (1990) The development of immunodeficiency in patients chronically infected by HIV is influenced by specific MHC ancestral haplotypes containing C4 null alleles. In: 4th National Conference on HIV/AIDS, 8 - 11 August 1990, Canberra, A.C.T.

1989

Thomas, M., Hollingsworth, P.N., Mallal, S., Saker, B. and Dawkins, R.L. (1989) IgA fibronectin collagen complexes in IgA nephropathy. In: 25th Annual Scientific Meeting of the Australasian Society of Nephrology, 26 February - 1 March 1989, Newcastle, N.S.W.

Cobain, T.J., Mallal, S., Hollingsworth, P.N., Christiansen, F.T. and Dawkins, R.L. (1989) MHC gene conferring susceptibility to SLE. In: 2nd International Conference on SLE, 26 - 30 November 1989, Singapore.

1983

Price, R.I., Retallack, R.W., Gutteridge, D.H., Black, J.L., Glancy, J., Hughes, D., Munslow-Davies, L., Uitermark, E. and Mallal, S.A. (1983) Quantitative in-vivo determination of bone mineral using computerized roentgenographic densitometry. Australasian Physical & Engineering Sciences in Medicine, 6 (3). pp. 128-137.

Keogh, E.J., MacKellar, A., Mallal, S.A., Dunn, A.G., McColm, S.C., Somerville, C.P. and Glatthaar, C. (1983) Treatment of cryptorchidism with pulsatile luteinizing hormone- releasing hormone (LH-RH). Journal of Pediatric Surgery, 18 (3). pp. 282-283.

1982

Keogh, E.J., Bertolini, J., Somerville, C.P., Mallal, S., Lawson-Smith, C., Attikiouzel, J. and Curnow, D.H. (1982) Central control of male reproduction. In: Annual Scientific Meeting of the Royal Australasian College of Physicians (WA), October 1982, Perth, Western Australia.

Keogh, E.J., Bertolini, J., Somerville, C.P., Mallal, S., Lawson-Smith, C., Attikiouzel, J. and Curnow, D.H. (1982) Central control of male reproduction. In: Inaugural Meeting of the Fertility Society of Australia, September 1982, Sydney, Australia.

Keogh, E.J., Mallal, S., McColm, S.C., Dunn, A.G., Marshall, T., Attikiouzel, J., Hague, R. and Bateson, N. (1982) Induction of spermatogenesis in hypogonadotrophic hypogonadism by pulsatile administration of LHRH. In: 7th Annual Meeting of the American Society Andrology, 24 - 26 February 1982, Hilton Head Island, South Carolina.

1981

Keogh, E.J., Bertolini, J., Mallal, S.A., Dunn, A.G., Byrne, S., Attikiouzel, J. and Marshall, T. (1981) Delayed puberty. In: Symposium. Human Reproductive Endocrinology, May 1981, Adelaide, S.A..

Keogh, E., Mallal, S.A., Giles, P.F.H. and Evans, D.V. (1981) Ovulation induction with intermittent subcutaneous LHRH. The Lancet, 317 (8212). p. 147.