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Associate Professor Jonathan Arthur

Associate Professor
Medicine, Children's Medical Research Institute

C29 - Children's Hospital Westmead
The University of Sydney
NSW 2006 Australia

T: +61 2 88652977
F: +61 2 98672120
E: Send message

Research interests

Proteomic bioinformatics: Proteomics depends critically on the ability to be able to identify and then characterize the thousands of proteins whose expression makes up the proteome of a particular individual at a particular time. The vast quantity of data generated by typical proteomic projects requires appropriate bioinformatics algorithms to enable this. Jonathan is interested in developing novel algorithms for the robust, accurate, and efficient identification and characterization of proteins using mass spectrometry.

Multiple sclerosis: Multiple sclerosis is an inflammatory and demyelinating autoimmune disorder of the central nervous system. It is the most common chronic neurological disease affecting young adults and affects approximately 15,000 people throughout Australia. Jonathan is interested in applying proteomics and bioinformatics to address ongoing questions regarding the aetiology, diagnosis, prognosis, and molecular basis of this disease.

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Keywords

Proteomics; Multiple sclerosis; Computational biology; Bioinformatics

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Publications

2011 | 2010 | 2009 | 2008 | 2007

2011

   
  • Liao, W., Arthur, J. (2011), Predicting peptide binding to Major Histocompatibility Complex molecules. Autoimmunity reviews. 10(8), 469-73. [Abstract]
  • Liao, W., Arthur, J. (2011), Predicting Peptide binding affinities to MHC molecules using a modified semi-empirical scoring function. PLoS One. 6(9), e25055. [Abstract]

2010

   
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  • Wang, P., Yang, P., Arthur, J., Yee Hwa Yang, J. (2010), A dynamic wavelet-based algorithm for pre-processing tandem mass spectrometry data. Bioinformatics (Oxford, England). 26(18), 2242-9. [Abstract]
  • Fung, C., Naughton, S., Turnbull, L., Tingpej, P., Rose, B., Arthur, J., Hu, H., Harmer, C., Harbour, C., Hassett, D., Whitchurch, C., Manos, J. (2010), Gene expression of Pseudomonas aeruginosa in a mucin-containing synthetic growth medium mimicking CF lung sputum. Journal of medical microbiology. 59(Pt 9), 1089-100. [Abstract]
  • Austin, C., Mailu, B., Maghzal, G., Sanchez-Perez, A., Rahlfs, S., Zocher, K., Yuasa, H., Arthur, J., Becker, K., Stocker, R., Hunt, N., Ball, H. (2010), Biochemical characteristics and inhibitor selectivity of mouse indoleamine 2,3-dioxygenase-2. Amino acids. 39(2), 565-78. [Abstract]
  • Lam, L., Tsoutsman, T., Arthur, J., Semsarian, C. (2010), Differential protein expression profiling of myocardial tissue in a mouse model of hypertrophic cardiomyopathy. Journal of molecular and cellular cardiology. 48(5), 1014-22. [Abstract]
  • Gandhi, K., McKay, F., Diefenbach, E., Crossett, B., Schibeci, S., Heard, R., Stewart, G., Booth, D., Arthur, J. (2010), Novel approaches to detect serum biomarkers for clinical response to interferon-beta treatment in multiple sclerosis. PLoS One. 5(5), e10484. [Abstract]
  • Arthur, J., Reichardt, J. (2010), Modeling Single Nucleotide Polymorphisms in the Human AKR1C1 and AKR1C2 Genes: Implications for Functional and Genotyping Analyses. PloS one. 5(12), e15604. [Abstract]
  • Musumeci, L., Arthur, J., Cheung, F., Hoque, A., Lippman, S., Reichardt, J. (2010), Single Nucleotide Differences (SNDs) in the dbSNP Database May Lead to Errors in Genotyping and Haplotyping Studies. Human Mutation. 31(1), 67-73. [Abstract]
  • McHugh, L., Arthur, J. (2010), Harvest: an open-source tool for the validation and improvement of peptide identification metrics and fragmentation exploration. BMC Bioinformatics. 11, 448. [Abstract]

2009

   
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  • Manos, J., Arthur, J., Rose, B., Bell, S., Tingpej, P., Hu, H., Webb, J., Kjelleberg, S., Gorrell, M., Bye, P., Harbour, C. (2009), Gene expression characteristics of a cystic fibrosis epidemic strain of Pseudomonas aeruginosa during biofilm and planktonic growth. FEMS Microbiology Letters. 292(1), 107-114. [Abstract]
  • McHugh, L., Arthur, J. (2009), Using Neural Networks to Identify More Proteins in High-Throughput Proteomics. United States: IEEE, .

2008

   
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  • Manos, J., Arthur, J., Rose, B., Tingpej, P., Fung, C., Curtis, M., Webb, J., Hu, H., Kjelleberg, S., Gorrell, M., Bye, P., Harbour, C. (2008), Transcriptome analyses and biofilm-forming characteristics of a clonal Pseudomonas aeruginosa from the cystic fibrosis lung. Journal of medical microbiology. 57(12), 1454-1465. [Abstract]
  • Wilkins, M., Arthur, J., Junius, F., Harrison, M., Traini, M., Bizannes, P., Doggett, P., McDonald, W. (2008), Information management for proteomics: a perspective. Expert Review of Proteomics. 5(5), 663-678. [Abstract]
  • Gandhi, K., McKay, F., Schibeci, S., Arthur, J., Heard, R., Stewart, G., Booth, D. (2008), BAFF is a Biological Response Marker to IFN-beta Treatment in Multiple Sclerosis. Journal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research. 28(9), 529-39. [Abstract]
  • McHugh, L., Arthur, J. (2008), Computational methods for protein identification from mass spectrometry data. PLoS computational biology. 4(2), e12-e24. [Abstract]
  • Arthur, J. (2008), GENOME INFORMATICS 2008 Genome Informatics Series Vol. 21 Proceedings of the 19th International Conference. United Kingdom: Imperial College Press, .
  • Arthur, J. (2008), Identification and characterization of microbial proteins using peptide mass fingerprinting strategies. Methods in molecular medicine. 141, 257-270. [Abstract]

2007

   
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  • Cattley, S., Arthur, J. (2007), BioManager: the use of a bioinformatics web application as a teaching tool in undergraduate bioinformatics training. Briefings in bioinformatics. 8(6), 457-465. [Abstract]
  • Lam, L., Arthur, J., Semsarian, C. (2007), Proteome map of the normal murine ventricular myocardium. Proteomics. 7, 3629-33. [Abstract]
  • Chiu, C., Tebo, M., Ingles, J., Yeates, L., Arthur, J., Lind, J., Semsarian, C. (2007), Genetic screening of calcium regulation genes in familial hypertrophic cardiomyopathy. Journal of Molecular and Cellular Cardiology. 43(3), 337-343. [Abstract]