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Research Output 1989 2019

2019

A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction

Mei, S., Li, F., Leier, A., Marquez-Lago, T. T., Giam, K., Croft, N. P., Akutsu, T., Smith, A. I., Li, J., Rossjohn, J., Purcell, A. W. & Song, J., 14 Jun 2019, (Accepted/In press) In : Briefings in Bioinformatics. 17 p., bbz051.

Research output: Contribution to journalReview ArticleResearchpeer-review

Amyloid Self-Assembly of hIAPP8-20 via the Accumulation of Helical Oligomers, α-Helix to β-Sheet Transition, and Formation of β-Barrel Intermediates

Sun, Y., Kakinen, A., Xing, Y., Faridi, P., Nandakumar, A., Purcell, A. W., Davis, T. P., Ke, P. C. & Ding, F., May 2019, In : Small. 15, 18, 10 p., 1805166.

Research output: Contribution to journalArticleResearchpeer-review

Comparative metabolomics and transcriptomics reveal multiple pathways associated with polymyxin killing in pseudomonas aeruginosa

Han, M-L., Zhu, Y., Creek, D. J., Lin, Y-W., Gutu, A. D., Hertzog, P., Purcell, T., Shen, H-H., Moskowitz, S. M., Velkov, T. & Li, J., 1 Jan 2019, In : mSystems. 4, 1, 18 p., e00149-18.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Downregulation of MHC Class I Expression by Influenza A and B Viruses

Koutsakos, M., McWilliam, H. E. G., Aktepe, T. E., Fritzlar, S., Illing, P. T., Mifsud, N. A., Purcell, A. W., Rockman, S., Reading, P. C., Vivian, J. P., Rossjohn, J., Brooks, A. G., Mackenzie, J. M., Mintern, J. D., Villadangos, J. A., Nguyen, T. H. O. & Kedzierska, K., 29 May 2019, In : Frontiers in Immunology. 10, 12 p., 1158.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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HLA-associated antiepileptic drug-induced cutaneous adverse reactions

Mullan, K. A., Anderson, A., Illing, P. T., Kwan, P., Purcell, A. W. & Mifsud, N. A., Jun 2019, In : HLA. 93, 6, p. 417-435 19 p.

Research output: Contribution to journalReview ArticleResearchpeer-review

Human CD8 + T cell cross-reactivity across influenza A, B and C viruses

Koutsakos, M., Illing, P. T., Nguyen, T. H. O., Mifsud, N. A., Crawford, J. C., Rizzetto, S., Eltahla, A. A., Clemens, E. B., Sant, S., Chua, B. Y., Wong, C. Y., Allen, E. K., Teng, D., Dash, P., Boyd, D. F., Grzelak, L., Zeng, W., Hurt, A. C., Barr, I., Rockman, S. & 17 others, Jackson, D. C., Kotsimbos, T. C., Cheng, A. C., Richards, M., Westall, G. P., Loudovaris, T., Mannering, S. I., Elliott, M., Tangye, S. G., Wakim, L. M., Rossjohn, J., Vijaykrishna, D., Luciani, F., Thomas, P. G., Gras, S., Purcell, A. W. & Kedzierska, K., 18 Feb 2019, In : Nature Immunology. 20, p. 613-625 15 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Mass spectrometry–based identification of MHC-bound peptides for immunopeptidomics

Purcell, A. W., Ramarathinam, S. H. & Ternette, N., Jun 2019, In : Nature Protocols. 14, 21 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Most viral peptides displayed by class I MHC on infected cells are immunogenic

Croft, N. P., Smith, S. A., Pickering, J., Sidney, J., Peters, B., Faridi, P., Witney, M. J., Sebastian, P., Flesch, I. E. A., Heading, S. L., Sette, A., La Gruta, N. L., Purcell, A. W. & Tscharke, D. C., 19 Feb 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 8, p. 3112-3117 6 p.

Research output: Contribution to journalArticleResearchpeer-review

Physical and toxicological profiles of human IAPP amyloids and plaques

Kakinen, A., Sun, Y., Javed, I., Faridi, A., Pilkington, E. H., Faridi, P., Purcell, A. W., Zhou, R., Ding, F., Lin, S., Ke, P. C. & Davis, T. P., 15 Jan 2019, In : Science Bulletin. 64, 1, p. 26-35 10 p.

Research output: Contribution to journalArticleResearchpeer-review

Positive-unlabelled learning of glycosylation sites in the human proteome

Li, F., Zhang, Y., Purcell, A. W., Webb, G. I., Chou, K-C., Lithgow, T., Li, C. & Song, J., 6 Mar 2019, In : BMC Bioinformatics. 20, 1, 17 p., 112.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Quantification of epitope abundance reveals the effect of direct and cross-presentation on influenza CTL responses

Wu, T., Guan, J., Handel, A., Tscharke, D. C., Sidney, J., Sette, A., Wakim, L. M., Sng, X. Y. X., Thomas, P. G., Croft, N. P., Purcell, A. W. & La Gruta, N. L., 28 Jun 2019, In : Nature Communications. 10, 1, 14 p., 2846.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Open Access

Synergistic Combination of Polymyxin B and Enrofloxacin Induced Metabolic Perturbations in Extensive Drug-resistant Pseudomonas aeruginosa

Lin, Y-W., Han, M-L., Zhao, J., Zhu, Y., Rao, G., Forrest, A., Song, J., Kaye, K. S., Hertzog, P., Purcell, A., Creek, D., Zhou, T. Q., Velkov, T. & Li, J., 3 Oct 2019, In : Frontiers in Pharmacology. 10, 11 p., 1146.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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The Evolving Landscape of Autoantigen Discovery and Characterization in Type 1 Diabetes

Purcell, A. W., Sechi, S. & DiLorenzo, T. P., 1 May 2019, In : Diabetes. 68, 5, p. 879-886 8 p.

Research output: Contribution to journalArticleResearchpeer-review

The three-dimensional structure of an H-superfamily conotoxin reveals a granulin fold arising from a common ICK cysteine framework

Nielsen, L. D., Foged, M. M., Albert, A., Bertelsen, A. B., Søltoft, C. L., Robinson, S. D., Petersen, S. V., Purcell, A. W., Olivera, B. M., Norton, R. S., Vasskog, T., Safavi-Hemami, H., Teilum, K. & Ellgaard, L., 1 Jan 2019, In : Journal of Biological Chemistry. 294, 22, p. 8745-8759 15 p.

Research output: Contribution to journalArticleResearchpeer-review

2018

A subset of HLA-I peptides are not genomically templated: Evidence for cis- and trans-spliced peptide ligands

Faridi, P., Li, C., Ramarathinam, S. H., Vivian, J. P., Illing, P. T., Mifsud, N. A., Ayala, R., Song, J., Gearing, L. J., Hertzog, P. J., Ternette, N., Rossjohn, J., Croft, N. P. & Purcell, A. W., 12 Oct 2018, In : Science Immunology. 3, 28, 12 p., eaar3947.

Research output: Contribution to journalArticleResearchpeer-review

Employing proteomics in the study of antigen presentation: an update

Ramarathinam, S. H., Croft, N. P., Illing, P. T., Faridi, P. & Purcell, A. W., 13 Aug 2018, In : Expert Review of Proteomics. 15, 8, p. 637-645 9 p.

Research output: Contribution to journalReview ArticleResearchpeer-review

HLA-B57 micropolymorphism defines the sequence and conformational breadth of the immunopeptidome

Illing, P. T., Pymm, P., Croft, N. P., Hilton, H. G., Jojic, V., Han, A. S., Mendoza, J. L., Mifsud, N. A., Dudek, N. L., McCluskey, J., Parham, P., Rossjohn, J., Vivian, J. P. & Purcell, A. W., 8 Nov 2018, In : Nature Communications. 9, 1, 13 p., 4693.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Identification of native and posttranslationally modified HLA-B*57:01- restricted HIV envelope derived epitopes using immunoproteomics

Ramarathinam, S. H., Gras, S., Alcantara, S., Yeung, A. W. S., Mifsud, N. A., Sonza, S., Illing, P., Glaros, E. N., Center, R. J., Thomas, S. R., Kent, S. J., Ternette, N., Purcell, D. F. J., Rossjohn, J. & Purcell, A. W., Jun 2018, In : Proteomics. 18, 12, 11 p., 1700253.

Research output: Contribution to journalArticleResearchpeer-review

Immunopeptidomics Special Issue

Ternette, N. & Purcell, A. W., 1 Jun 2018, In : Proteomics. 18, 12, 4 p., 1800145.

Research output: Contribution to journalEditorialOtherpeer-review

Inability to detect cross-reactive memory T cells challenges the frequency of heterologous immunity among common viruses

Rowntree, L. C., Nguyen, T. H. O., Halim, H., Purcell, A. W., Rossjohn, J., Gras, S., Kotsimbos, T. C. & Mifsud, N. A., 15 Jun 2018, In : Journal of Immunology. 200, 12, p. 3993-4003 11 p.

Research output: Contribution to journalArticleResearchpeer-review

In Immunopeptidomics We Need a Sniper Instead of a Shotgun

Faridi, P., Purcell, A. W. & Croft, N. P., 1 Jun 2018, In : Proteomics. 18, 12, 4 p., 1700464.

Research output: Contribution to journalArticleOtherpeer-review

Isolation of T cell receptors targeting recurrent neoantigens in hematological malignancies

Tubb, V. M., Schrikkema, D. S., Croft, N. P., Purcell, A. W., Linnemann, C., Freriks, M. R., Chen, F., Long, H. M., Lee, S. P. & Bendle, G. M., 13 Jul 2018, In : Journal for ImmunoTherapy of Cancer. 6, 1, 14 p., 70.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Minimal Information About an Immuno-Peptidomics Experiment (MIAIPE)

Lill, J. R., Van Veelen, P. A., Tenzer, S., Admon, A., Caron, E., Elias, J. E., Heck, A. J. R., Marcilla, M., Marino, F., Müller, M., Peters, B., Purcell, A., Sette, A., Sturm, T., Ternette, N. & Vizcaino, J. A., 1 Jun 2018, In : Proteomics. 18, 12, 7 p., 1800110.

Research output: Contribution to journalArticleOtherpeer-review

Open Access
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Mitigating Human IAPP Amyloidogenesis In Vivo with Chiral Silica Nanoribbons

Faridi, A., Sun, Y., Okazaki, Y., Peng, G., Gao, J., Kakinen, A., Faridi, P., Zhao, M., Javed, I., Purcell, A. W., Davis, T. P., Lin, S., Oda, R., Ding, F. & Ke, P. C., 22 Nov 2018, In : Small. 14, 47, 13 p., 1802825.

Research output: Contribution to journalArticleResearchpeer-review

Quokka: A comprehensive tool for rapid and accurate prediction of kinase family-specific phosphorylation sites in the human proteome

Li, F., Li, C., Marquez-Lago, T. T., Leier, A., Akutsu, T., Purcell, A. W., Smith, A. I., Lithgow, T., Daly, R. J., Song, J. & Chou, K-C., 15 Dec 2018, In : Bioinformatics. 34, 24, p. 4223-4231 9 p., bty522.

Research output: Contribution to journalArticleResearchpeer-review

Tadpole-like Conformations of Huntingtin Exon 1 Are Characterized by Conformational Heterogeneity that Persists regardless of Polyglutamine Length

Newcombe, E. A., Ruff, K. M., Sethi, A., Ormsby, A. R., Ramdzan, Y. M., Fox, A. H., Purcell, A. W., Gooley, P. R., Pappu, R. V. & Hatters, D. M., 11 May 2018, In : Journal of Molecular Biology. 430, 10, p. 1442-1458 17 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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T cell autoreactivity directed toward CD1c itself rather than toward carried self lipids

Wun, K. S., Reijneveld, J. F., Cheng, T. Y., Ladell, K., Uldrich, A. P., Le Nours, J., Miners, K. L., McLaren, J. E., Grant, E. J., Haigh, O. L., Watkins, T. S., Suliman, S., Iwany, S., Jimenez, J., Calderon, R., Tamara, K. L., Leon, S. R., Murray, M. B., Mayfield, J. A., Altman, J. D. & 8 others, Purcell, A. W., Miles, J. J., Godfrey, D. I., Gras, S., Price, D. A., Van Rhijn, I., Moody, D. B. & Rossjohn, J., 1 Apr 2018, In : Nature Immunology. 19, 4, p. 397-406 10 p.

Research output: Contribution to journalArticleResearchpeer-review

The interplay between citrullination and HLA-DRB1 polymorphism in shaping peptide binding hierarchies in rheumatoid arthritis

Ting, Y. T., Petersen, J., Ramarathinam, S. H., Scally, S. W., Loh, K. L., Thomas, R., Suri, A., Baker, D. G., Purcell, A. W., Reid, H. H. & Rossjohn, J., 2 Mar 2018, In : Journal of Biological Chemistry. 293, 9, p. 3236-3251 16 p.

Research output: Contribution to journalArticleResearchpeer-review

The SysteMHC Atlas project

Shao, W., Pedrioli, P. G. A., Wolski, W., Scurtescu, C., Schmid, E., Vizcaíno, J. A., Courcelles, M., Schuster, H., Kowalewski, D., Marino, F., Arlehamn, C. S. L., Vaughan, K., Peters, B., Sette, A., Ottenhoff, T. H. M., Meijgaarden, K. E., Nieuwenhuizen, N., Kaufmann, S. H. E., Schlapbach, R., Castle, J. C. & 26 others, Nesvizhskii, A. I., Nielsen, M., Deutsch, E. W., Campbell, D. S., Moritz, R. L., Zubarev, R. A., Ytterberg, A. J., Purcell, A. W., Marcilla, M., Paradela, A., Wang, Q., Costello, C. E., Ternette, N., Van Veelen, P. A., Van Els, C. A. C. M., Heck, A. J. R., De Souza, G. A., Sollid, L. M., Admon, A., Stevanovic, S., Rammensee, H. G., Thibault, P., Perreault, C., Bassani-Sternberg, M., Aebersold, R. & Caron, E., 1 Jan 2018, In : Nucleic Acids Research. 46, D1, p. D1237-D1247 11 p.

Research output: Contribution to journalArticleOtherpeer-review

Open Access
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The use of CRISPR/Cas9 gene editing to confirm congenic contaminations in host-pathogen interaction studies

Ferrand, J., Croft, N. P., Pépin, G., Diener, K. R., Wu, D., Mangan, N. E., Pedersen, J., Behlke, M. A., Hayball, J. D., Purcell, A. W., Ferrero, R. L. & Gantier, M. P., 19 Mar 2018, In : Frontiers in Cellular and Infection Microbiology. 8, 10 p., 87.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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The use of proteomics to understand antiviral immunity

Woon, A. P. & Purcell, A. W., 1 Dec 2018, In : Seminars in Cell and Developmental Biology. 84, p. 22-29 8 p.

Research output: Contribution to journalReview ArticleResearchpeer-review

Twenty years of bioinformatics research for protease-specific substrate and cleavage site prediction: a comprehensive revisit and benchmarking of existing methods

Li, F., Wang, Y., Li, C., Marquez-Lago, T. T., Leier, A., Rawlings, N. D., Haffari, G., Revote, J., Akutsu, T., Chou, K-C., Purcell, A. W., Pike, R. N., Webb, G. I., Smith, A. I., Lithgow, T., Daly, R. J., Whisstock, J. C. & Song, J., 2018, (Accepted/In press) In : Briefings in Bioinformatics. 17 p., bby077.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Viral regulation of host cell biology by hijacking of the nucleolar DNA-damage response

Rawlinson, S. M., Zhao, T., Rozario, A. M., Rootes, C. L., McMillan, P. J., Purcell, A. W., Woon, A., Marsh, G. A., Lieu, K. G., Wang, L-F., Netter, H. J., Bell, T. D. M., Stewart, C. R. & Moseley, G. W., 3 Aug 2018, In : Nature Communications. 9, 1, 12 p., 3057.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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2017

Comparative transcriptomics highlights the role of the activator protein 1 transcription factor in the host response to Ebolavirus

Wynne, J. W., Todd, S., Boyd, V., Tachedjian, M., Klein, R., Shiell, B., Dearnley, M., McAuley, A. J., Woon, A. P., Purcell, A. W., Marsh, G. A. & Baker, M. L., 1 Dec 2017, In : Journal of Virology. 91, 23, 21 p., e01174-17.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Dominant protection from HLA-linked autoimmunity by antigen-specific regulatory T cells

Ooi, J. D., Petersen, J., Tan, Y. H., Huynh, M., Willett, Z. J., Ramarathinam, S. H., Eggenhuizen, P. J., Loh, K. L., Watson, K. A., Gan, P. Y., Alikhan, M. A., Dudek, N. L., Handel, A., Hudson, B. G., Fugger, L., Power, D. A., Holt, S. G., Coates, P. T., Gregersen, J. W., Purcell, A. W. & 5 others, Holdsworth, S. R., La Gruta, N. L., Reid, H. H., Rossjohn, J. & Kitching, A. R., 11 May 2017, In : Nature. 545, 7653, p. 243-247 5 p.

Research output: Contribution to journalArticleResearchpeer-review

Drugs and drug-like molecules can modulate the function of mucosal-associated invariant T cells

Keller, A. N., Eckle, S. B. G., Xu, W., Liu, L., Hughes, V. A., Mak, J. Y. W., Meehan, B. S., Pediongco, T., Birkinshaw, R. W., Chen, Z., Wang, H., D'Souza, C., Kjer-Nielsen, L., Gherardin, N. A., Godfrey, D. I., Kostenko, L., Corbett, A. J., Purcell, A. W., Fairlie, D. P., McCluskey, J. & 1 others, Rossjohn, J., Apr 2017, In : Nature Immunology. 18, 4, p. 402-411 14 p.

Research output: Contribution to journalArticleResearchpeer-review

HIVed, a knowledgebase for differentially expressed human genes and proteins during HIV infection, replication and latency

Li, C., Ramarathinam, S. H., Revote, J., Khoury, G., Song, J. & Purcell, A. W., 30 Mar 2017, In : Scientific Reports. 7, 45509.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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Hormone-like peptides in the venoms of marine cone snails

Robinson, S. D., Li, Q., Bandyopadhyay, P. K., Gajewiak, J., Yandell, M., Papenfuss, A. T., Purcell, A., Norton, R. S. & Safavi-Hemami, H., 1 Apr 2017, In : General and Comparative Endocrinology. 244, p. 11-18 8 p.

Research output: Contribution to journalArticleResearchpeer-review

Huntingtin Inclusions Trigger Cellular Quiescence, Deactivate Apoptosis, and Lead to Delayed Necrosis

Ramdzan, Y. M., Trubetskov, M. M., Ormsby, A. R., Newcombe, E. A., Sui, X., Tobin, M. J., Bongiovanni, M. N., Gras, S. L., Dewson, G., Miller, J. M. L., Finkbeiner, S., Moily, N. S., Niclis, J., Parish, C. L., Purcell, A. W., Baker, M. J., Wilce, J. A., Waris, S., Stojanovski, D., Böcking, T. & 4 others, Ang, C-S., Ascher, D. B., Reid, G. E. & Hatters, D. M., 2 May 2017, In : Cell Reports. 19, 5, p. 919-927 9 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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MHC-I peptides get out of the groove and enable a novel mechanism of HIV-1 escape

Pymm, P., Illing, P. T., Ramarathinam, S. H., O'Connor, G. M., Hughes, V. A., Hitchen, C., Price, D. A., Ho, B. K., McVicar, D. W., Brooks, A. G., Purcell, A. W., Rossjohn, J. & Vivian, J. P., Apr 2017, In : Nature Structural and Molecular Biology. 24, 4, p. 387-394 8 p.

Research output: Contribution to journalArticleResearchpeer-review

New Approaches to Investigate Drug-Induced Hypersensitivity

Ogese, M. O., Ahmed, S., Alferivic, A., Betts, C. J., Dickinson, A., Faulkner, L., French, N., Gibson, A., Hirschfield, G. M., Kammüller, M., Meng, X., Martin, S. F., Musette, P., Norris, A., Pirmohamed, M., Park, B. K., Purcell, A. W., Spraggs, C. F., Whritenour, J. & Naisbitt, D. J., 17 Jan 2017, In : Chemical Research in Toxicology. 30, 1, p. 239-259 21 p.

Research output: Contribution to journalReview ArticleResearchpeer-review

Structural and regulatory diversity shape HLA-C protein expression levels

Kaur, G., Gras, S., Mobbs, J. I., Vivian, J. P., Cortes, A., Barber, T., Kuttikkatte, S. B., Jensen, L. T., Attfield, K. E., Dendrou, C. A., Carrington, M., McVean, G., Purcell, A. W., Rossjohn, J. & Fugger, L., 26 Jun 2017, In : Nature Communications. 8, 12 p., 15924.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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The molecular basis for peptide repertoire selection in the human leucocyte antigen (HLA) C∗06: 02 molecule

Mobbs, J. I., Illing, P. T., Dudek, N. L., Brooks, A. G., Baker, D. G., Purcell, A. W., Rossjohn, J. & Vivian, J. P., 20 Oct 2017, In : Journal of Biological Chemistry. 292, 42, p. 17203-17215 13 p.

Research output: Contribution to journalArticleResearchpeer-review

The role of HLA genes in pharmacogenomics: unravelling HLA associated adverse drug reactions

Illing, P. T., Purcell, A. W. & McCluskey, J., Aug 2017, In : Immunogenetics. 69, 8-9, p. 617-630 14 p.

Research output: Contribution to journalReview ArticleResearchpeer-review

The use of imaging mass spectrometry to study peptide toxin distribution in Australian sea anemones

Mitchell, M. L., Hamilton, B. R., Madio, B., Morales, R. A. V., Tonkin-Hill, G. Q., Papenfuss, A. T., Purcell, A. W., King, G. F., Undheim, E. A. B. & Norton, R. S., 2017, In : Australian Journal of Chemistry. 70, 11, p. 1235-1237 3 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access
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2016

Allotype specific interactions of drugs and HLA molecules in hypersensitivity reactions

Illing, P. T., Mifsud, N. A. & Purcell, A. W., Oct 2016, In : Current Opinion in Immunology. 42, p. 31-40 10 p.

Research output: Contribution to journalReview ArticleOtherpeer-review

A naturally occurring peptide with an elementary single disulfide-directed β-hairpin fold

Robinson, S., Chhabra, S., Belgi, A., Chittoor, B., Safavi-Hemami, H., Robinson, A. J., Papenfuss, A. T., Purcell, A. & Norton, R., 2 Feb 2016, In : Structure. 24, 2, p. 293-299 7 p.

Research output: Contribution to journalArticleResearchpeer-review

Anthelmintic closantel enhances bacterial killing of polymyxin B against multidrug-resistant Acinetobacter baumannii

Tran, T. B., Cheah, S-E., Yu, H. H., Bergen, P. J., Nation, R. L., Creek, D. J., Purcell, A., Forrest, A., Doi, Y., Song, J., Velkov, T. & Li, J., 1 Jun 2016, In : Journal of Antibiotics. 69, 6, p. 415-421 7 p.

Research output: Contribution to journalArticleResearchpeer-review

Open Access