Professor Marc Wilkins
- Position: Professor
- Room: 263, Biological Sciences
- Phone: (+61 2) 9385 3633
- Fax: (+61 2) 9385 1483
- email: marc.wilkins@unsw.edu.au
Professional Experience
- 2004 - Head of Proteomics, Proteome Systems Limited
- 1999 - Vice President Bioinformatics, Proteome Systems Limited
Research Contribution
In 1994, Wilkins developed the concept of the proteome and coined the term. He wrote a series of seminal publications in the field and in 1997 co-wrote and co-edited the first book on proteomics (4,000+ copies sold). These substantially contributed to the establishment of the proteome and of proteome research. Proteomics is the most widely adopted of the new -omics, is now included in biochemistry textbooks and the undergraduate curriculum.
Marc has published 90 peer-reviewed research papers, review papers and book chapters and has edited 2 books. This body of work has been cited 3,965 times. Marc's research has tackled many of the key issues in proteomics. A particular strength has been the capacity to combine analytical techniques with complex bioinformatics to open new avenues for biological investigation. Pioneering contributions were in the area of high-throughput protein identification, the automation of protein identification analyses, and the establishment of bioinformatic protein identification tools and data analysis pipelines. The development of mass spectrometry-based approaches for the discovery of post-translational modifications is also of note. Prof Wilkins has been a Chief Investigator or collaborator on industrial and academic proteomic projects in areas of renal cell carcinoma, gingivitis, tuberculosis, heart failure, exacerbation in cystic fibrosis, antibiotic resistance in B. subtilis, microbial toxin diversity and mad cow disease. A number of these projects remain the subject of ongoing research. Interactome research is a new area of focus and builds on his strengths in proteomics and proteomic bioinformatics.
Marc has substantial experience in industry. He co-founded Proteome Systems in 1999. This is now Australia's largest proteomics company, employs over 40 staff and is listed on the Australian Stock Exchange (code: PXL). Marc worked full-time with Proteome Systems for 6 years, was a chief investigator on proteomics projects with industry partners (e.g. Dow AgroSciences, Cystic Fibrosis Therapeutics Inc.) and led Proteome Systems bioinformatics R & D team; output which was commercialised and sold into laboratories in Australia, Japan, Malaysia and the United States.
Honours & Awards
- Senior Editor of Proteomics journal (2004-). Editorial board of Bioinformatics and Biology Insights (2007-), Practical Proteomics (2005-) and Electrophoresis journal (1998-2000).
- Member of 11-person ARC Selection Advisory Committee for Linkage Infrastructure, Equipment and Facilities (LIEF) in 2008.
- Visiting Professor, Kurume University, Japan (2003-2007).
- Member of Advisory Boards of ARC Bioinformatics Centre of Excellence (2004-), NHMRC Australian Proteomics Computational Facility (2006-), Ramaciotti Centre for Gene Function Analysis (2007-), UNSW Analytical Centre (2007-).
- Director of Regeneus Pty Ltd (2007-)
- Member of the Australian Government's Expert Task Force for Bioinformatics (2003-2005)
- Consultant to the DPI Sheep Genomics Program (2006-2007).
Active Research Projects
- Detecting Changes in Protein-Protein Interactions
- Role of Post-translational Modifications in the Protein-Protein Interaction Network
- Tethered-catalysis Two-hybrid System: Identification of Modification-regulated Interactions in the Interactome
Publications
- Little, P.F.R., Williams, R.B., Wilkins, M.R. (2009)
- Inter-individual variation in expression: a missing link in biomarker biology?
- Trends in Biotechnology. 27(1):5-10
- Erce, M.A., Low, J.K.K., March, P.E., Wilkins, M.R. and Takayama, K.M. (2009)
- Identification and functional analysis of RNase E of Vibrio augustum S14 and two-hybrid analysis of its interaction partners
- Biochimica et Biophysica Acta. 1794: 1107-1114
- Wilkins, M.R. (2009)
- Hares and tortoises: The high- versus low-throughput proteomic race
- Electrophoresis. 30: S150-S155
- Huang, K.Y., Filarsky, M., Padula, M.P., Raftery, M.J., Herbert, B.R. and Wilkins, M.R. (2009)
- Micropreparative fractionation of the complexome by blue native continuous elution electrophoresis.
- Proteomics. 9: 2494-2502
- Wilkins MR, Kummerfeld SK (2008)
- Sticking together? Falling apart? Exploring the dynamics of the interactome.
- Trends in Biochemical Sciences, 33:195-200.
- Pang CNI, Chen A, Hayen A, Wilkins MR (2008)
- Are protein complexes composed of core, module and attachment proteins?
- Proteomics 3: 425-434
- Ho E, Webber R, Wilkins MR (2008)
- Interactive three-dimensional visualization and contextual analysis of protein interaction networks
- Journal of Proteome Research 7: 104-12.
- Krycer, J.R., Pang, C.N.I. and Wilkins, M.R. (2008)
- High throughput protein-protein interaction data: clues for the architecture of protein complexes.
- Proteome Science. 6:32
- Wilkins, M.R., Arthur, J.W., Junius, F.K., Harrison, M.J., Traini, M.D., Bizannes, P., Doggett, P.E. and McDonald, W. (2008)
- Information management for proteomics: a perspective.
- Expert Reviews Proteomics. 5(5):663-78.
- Deshpande, N., Wilkins, M.R., Packer, N.H. and Nevalainen, H. (2008)
- Protein glycosylation pathways in filamentous fungi
- Glycobiology. 18:626-37
- Couttas TA, Raftery MJ, Bernardini G and Wilkins MR (2008)
- Immonium ion scanning for the discovery of post-translational modifications and its application to histones.
- Journal of Proteome Research. 7: 2632-2641.
- Pang CNI and Wilkins MR (2008)
- Online resources for the molecular contextualization of disease.
- In: Clinical Bioinformatics. Trent RJA (Eds). Humana Press, Totowa, pp 287-308.
- Wilkins, M.R. (2008)
- Biomarker identification: the role of experimental design, statistics and data sharing.
- In: Clinical Proteomics: from Diagnosis to Therapy. J. Van Eyk MD (Eds). Wiley-VCH, Weinham, pp 113-120.
- Taylor CF, Paton NW, Lilley KS, Binz PA, Julian RK, Jones AR, Zhu W, Apweiler R, Aebersold R, Deutsch EW, Macht M, Mann M, Neubert TA, Patterson SD, Seymour SL, Tsugita A, Wilkins MR, Xenarios I, Hermjakob H. (2007)
- The Minimum Information About a Proteomics Experiment (MIAPE)
- Nature Biotechnology, 25(8): 887-893.
- Wilkins, M.R. (2007)
- Low versus High Order Proteomics: time to move up?
- Journal of Proteome Research. 6 (7), 2403
- Hsu, W-T., Pang, C.N.I., Sheetal, J. and Wilkins, M.R. (2007)
- Protein-protein interactions and disease: use of S. cerevisiae as a model system
- BBA Proteins and Proteomics. 1774: 838-47
- Pang, C.N.I., Hayen, A. and Wilkins, M.R. (2007)
- Surface accessibility of post-translational modifications.
- Journal of Proteome Research. 6: 1833-45.
- Wilkins MR, Appel RD, Van Eyk JE, Chung MCM, Görg A, Hecker MA, Huber LA, Langen H, Link AJ, Paik YK, Patterson SD, Pennington SR, Rabilloud T, Simpson RJ, Dunn MJ. (2006)
- Guidelines for the next 10 years of proteomics.
- Proteomics 6: 4-8.
- Ho E, Hayen A, Wilkins MR (2006)
- Characterisation of organellar proteomes: subcellular proteomic fractionation and analysis.
- Proteomics, 6: 5746-5757.
- Wilkins, M.R. (2006)
- How proteomics can assist in the detection and avoidance of adverse drug reactions.
- Transfusion Medicine and Hemotherapy. 33, 97-105
- Hunt SMN, Thomas MR, Sebastian LT, Pedersen SK, Harcourt RL, Sloane AJ, Wilkins MR (2005)
- Optimal replication and the importance of experimental design for gel-based quantitative proteomics.
- Journal of Proteome Research 4: 809-819.
- Arthur, JW and Wilkins, MR. (2004)
- Using proteomics to mine genome sequences.
- Journal of Proteome Research 3: 393-402.
- Cooper CA, Joshi HJ, Harrison MJ, Wilkins MR, Packer NH (2003)
- GlycosuiteDB : a curated relational database of glycoprotein glycan structures and their biological sources.
- Nucleic Acids Research 31: 511-513.
- Pedersen SK, Harry JL, Sebastian L, Baker J, Traini MD, McCarthy JT, Manoharan, Wilkins MR, Gooley AA, Righetti PG, Packer NH, Williams KL, Herbert BR. (2003)
- Unseen proteome: mining below the tip of the iceberg to find low abundance and membrane proteins.
- Journal of Proteome Research 2:303-11.