Select Publications

Journal articles

Twine NA; Chen L; Pang CN; Wilkins MR; Kassem M, 2014, 'Identification of differentiation-stage specific markers that define the ex vivo osteoblastic phenotype', Bone, 67, pp. 23 - 32, http://dx.doi.org/10.1016/j.bone.2014.06.027

Hook SE; Osborn HL; Gissi F; Moncuquet P; Twine NA; Wilkins MR; Adams MS, 2014, 'RNA-Seq analysis of the toxicant-induced transcriptome of the marine diatom, Ceratoneis closterium', Marine Genomics, 16, pp. 45 - 53, http://dx.doi.org/10.1016/j.margen.2013.12.004

Yagoub D; Wilkins MR; Lay AJ; Kaczorowski DC; Hatoum D; Bajan S; Hutvagner G; Lai JH; Wu W; Martiniello-Wilks R; Xia P; McGowan EM, 2014, 'Sphingosine kinase 1 Isoform-Specific interactions in breast cancer', Molecular Endocrinology, 28, pp. 1899 - 1915, http://dx.doi.org/10.1210/me.2013-1423

Hook SE; Simpson SL; Spadaro DA; Twine NA; Wilkins MR; Moncuquet P, 2014, '454 pyrosequencing-based analysis of gene expression profiles in the amphipod Melita plumulosa: Transcriptome assembly and toxicant induced changes', Aquatic Toxicology, http://dx.doi.org/10.1016/j.aquatox.2013.11.022

Hook SE; Simpson SL; Spadaro DA; Twine NA; Wilkins MR; Moncuquet P, 2014, '454 pyrosequencing-based analysis of gene expression profiles in the amphipod Melita plumulosa: Transcriptome assembly and toxicant induced changes', Aquatic Toxicology, 153, pp. 73 - 88, http://dx.doi.org/10.1016/j.aquatox.2013.11.022

Hook SE; Osborn HL; Gissi F; Moncuquet P; Twine NA; Wilkins MR; Adams MS, 2014, 'RNA-Seq analysis of the toxicant-induced transcriptome of the marine diatom, Ceratoneis closterium', Marine Genomics, http://dx.doi.org/10.1016/j.margen.2013.12.004

Schramm SJ; Jayaswal V; Goel A; Li SS; Yang YH; Mann GJ; Wilkins MR, 2013, 'Molecular interaction networks for the analysis of human disease: Utility, limitations, and considerations', Proteomics, 13, pp. 3393 - 3405, http://dx.doi.org/10.1002/pmic.201200570

Jayaswal V; Schramm SJ; Mann GJ; Wilkins MR; Yang YH, 2013, 'VAN: An R package for identifying biologically perturbed networks via differential variability analysis', BMC Research Notes, 6, http://dx.doi.org/10.1186/1756-0500-6-430

Low JKK; Hart-Smith G; Erce MA; Wilkins MR, 2013, 'Analysis of the proteome of Saccharomyces cerevisiae for methylarginine', Journal of Proteome Research, 12, pp. 3884 - 3899, http://dx.doi.org/10.1021/pr400556c

Deshpande NP; Wong YK; Manefield M; Wilkins MR; Lee M, 2013, 'Genome Sequence of Dehalobacter UNSWDHB, a Chloroform-Dechlorinating Bacterium', GENOME ANNOUNCEMENTS, 1, http://dx.doi.org/10.1128/genomeA.00720-13

Deshpande NP; Kaakoush NO; Wilkins MR; Mitchell HM, 2013, 'Comparative genomics of Campylobacter concisus isolates reveals genetic diversity and provides insights into disease association', BMC Genomics, 14, http://dx.doi.org/10.1186/1471-2164-14-585

Erce MA; Abeygunawardena D; Low JKK; Hart-Smith G; Wilkins MR, 2013, 'Interactions affected by arginine methylation in the yeast protein-protein interaction network', Molecular & Cellular Proteomics, http://dx.doi.org/10.1074/mcp.M113.031500

Funnell APW; Mak KS; Twine NA; Pelka GJ; Norton LJ; Radziewic T; Power M; Wilkins MR; Bell-Anderson KS; Fraser ST; Perkins AC; Tam PP; Pearson RCM; Crossley M, 2013, 'Generation of Mice Deficient in both KLF3/BKLF and KLF8 Reveals a Genetic Interaction and a Role for These Factors in Embryonic Globin Gene Silencing', Molecular and Cellular Biology, 33, pp. 2976 - 2987, http://dx.doi.org/10.1128/MCB.00074-13

Chen Z; Wilkins MR; Hunter N; Nadkarni M, 2013, 'Draft Genome Sequences of Two Clinical Isolates of Lactobacillus rhamnosus from Initial Stages of Dental Pulp Infection', Genome Announcements, 1, http://dx.doi.org/10.1128/genomeA.00073-12

Tay AP; Kaakoush NO; Deshpande NP; Chen Z; Mitchell H; Wilkins MR, 2013, 'Genome sequence of Campylobacter showae UNSWCD, isolated from a patient with Crohn's disease', Genome Announcements, 1, http://dx.doi.org/10.1128/genomeA.00193-12

Deshpande NP; Wong YK; Manefield M; Wilkins MR; Lee M, 2013, 'Genome sequence of Dehalobacter UNSWDHB, a chloroform-dechlorinating bacterium', Genome Announcements, 1, http://dx.doi.org/10.1128/genomeA.e00720-13

Erce MA; Low JKK; Hart-Smith GO; Wilkins MR, 2013, 'A conditional two-hybrid (C2H) system for the detection of protein-protein interactions that are mediated by post-translational modification', Proteomics, 13, pp. 1059 - 1064, http://dx.doi.org/10.1002/pmic.201200477

Schramm S-J; Li SS; Jayaswal V; Fung D; Campain AE; Pang CNI; Scolyer RA; Yang YH; Mann GJ; Wilkins MR, 2013, 'Disturbed protein-protein interaction networks in metastatic melanoma are associated with worse prognosis and increased functional mutation burden', Pigment Cell & Melanoma Research, 26, pp. 708 - 722, http://onlinelibrary.wiley.com/doi/10.1111/pcmr.12126/abstract

Twine NA; Janitz C; Wilkins MR; Janitz M, 2013, 'Sequencing of hippocampal and cerebellar transcriptomes provides new insights into the complexity of gene regulation in the human brain.', Neuroscience Letters, 541, pp. 263 - 268, http://dx.doi.org/10.1016/j.neulet.2013.02.034

Pang CNI; Goel A; Li SS; Wilkins MR, 2012, 'A multidimensional matrix for systems biology research and its application to interaction networks.', Journal of Proteome Research, 11, pp. 5204 - 5220, http://dx.doi.org/10.1021/pr300405y

Yeung WCG; Pang CNI; Wilkins MR; Catteau J; Howard N; Rawlinson WD; Craig ME; Al-Shabeeb A, 2012, 'Children with islet autoimmunity and enterovirus infection demonstrate a distinct cytokine profile', Diabetes, 61, pp. 1500 - 1508, http://dx.doi.org/10.2337/db11-0264

Scott GM; Chow SS; Craig ME; Pang CN; Hall B; Wilkins MR; Jones C; Lloyd AR; Rawlinson WD; hall B, 2012, 'Cytomegalovirus infection during pregnancy with maternofetal transmission induces a proinflammatory cytokine bias in placenta and amniotic fluid', Journal of Infectious Diseases, 205, pp. 1305 - 1310, http://dx.doi.org/10.1093/infdis/jis186

Goel A; Wilkins MR, 2012, 'Dynamic hubs show competitive and static hubs non-competitive regulation of their interaction partners.', PLoS One, 7, pp. e48209, http://dx.doi.org/10.1371/journal.pone.0048209

Hart-Smith GO; Low JKK; Erce MA; Wilkins MR, 2012, 'Enhanced methylarginine characterization by post-translational modification-specific targeted data acquisition and electron-transfer dissociation mass spectrometry', Journal of the American Society for Mass Spectrometry, 23, pp. 1376 - 1389, http://dx.doi.org/10.1007/s13361-012-0417-8

Couttas TA; Raftery MJ; Padula M; Herbert BR; Wilkins MR, 2012, 'Methylation of translation-associated proteins in Saccharomyces cerevisiae: Identification of methylated lysines and their methyltransferases', Proteomics, 12, pp. 960 - 972, http://dx.doi.org/10.1002/pmic.201100570

Low JKK; Wilkins MR, 2012, 'Protein arginine methylation in Saccharomyces cerevisiae', FEBS Journal, 279, pp. 4423 - 4443, http://dx.doi.org/10.1111/febs.12039

Funnell AP; Norton LJ; Mak KS; Burdach J; Artuz CM; Twine NA; Wilkins MR; Power C; Hung TT; Perdomo JS; Bell-Anderson K; Orkin SH; Pearson RC; Crossley M, 2012, 'The CACCC-binding protein KLF3/BKLF represses a subset of KLF1/EKLF target genes and is required for proper erythroid maturation in vivo', Molecular and Cellular Biology, 32, pp. 3281 - 3292

Erce MA; Pang CN; Hart-Smith GO; Wilkins MR, 2012, 'The methylproteome and the intracellular methylation network.', Proteomics, 12, pp. 564 - 586, http://dx.doi.org/10.1002/pmic.201100397

Webster R; Blaber SP; Herbert BR; Wilkins MR; Vesey G, 2012, 'The role of mesenchymal stem cells in veterinary therapeutics - A Review', New Zealand Veterinary Journal, 60, pp. 265 - 272, http://dx.doi.org/10.1080/00480169.2012.683377

Chong HS; Campbell LT; Padula MP; Hill CJ; Harry EJ; Li SS; Wilkins MR; Herbert BR; Carter DA, 2012, 'Time-course proteome analysis reveals the dynamic response of cryptococcus gattii cells to fluconazole', PLoS One, 7, pp. August - Article numbere42835, http://dx.doi.org/10.1371/journal.pone.0042835

Fung DCY; Li SS; Goel A; Hong S-H; Wilkins MR, 2012, 'Visualization of the interactome: what are we looking at?', Proteomics, 12, pp. 1669 - 1686, http://dx.doi.org/10.1002/pmic.201100454

Kaakoush NO; Deshpande N; Wilkins MR; Raftery MJ; Janitz K; Mitchell HM, 2011, 'Comparative analyses of Campylobacter concisusstrains reveal the genome of the reference strain BAA-1457 is not representative of the species.', Gut Pathogens, 3, pp. 15, http://dx.doi.org/10.1186/1757-4749-3-15

Goel A; Li SS; Wilkins MR, 2011, 'Four-dimensional visualisation and analysis of protein-protein interaction networks', Proteomics, 11, pp. 2672 - 2682

Couttas TA; Raftery MJ; Erce MA; Wilkins MR, 2011, 'Monitoring cytoplasmic protein complexes with blue native gel electrophoresis and stable isotope labelling with amino acids in cell culture: analysis of changes in the 20S proteasome', Electrophoresis, 32, pp. 1819 - 1823, http://dx.doi.org/10.1002/elps.201100122

Deshpande NP; Kaakoush NO; Mitchell HM; Janitz K; Raftery MJ; Li SS; Wilkins MR, 2011, 'Sequencing and validation of the genome of a Campylobacter concisus reveals intra-species diversity', PLoS ONE, 6, pp. e22170, http://dx.doi.org/10.1371/journal.pone/0022170

Kaakoush NO; Deshpande NP; Wilkins MR; Tan C; Burgos-Portugal J; Raftery MJ; Day AS; Lemberg DA; Mitchell HM, 2011, 'The pathogenic potential of campylobacter concisus strains associated with chronic intestinal diseases', PLoS One, 6, pp. e29045, http://dx.doi.org/10.1371

Campbell M; Hayes C; Struwe WB; Wilkins MR; Aoki-kinoshita K; Harvey D; Rudd P; Kolarich D; Karlsson N; Packer N, 2011, 'UniCarbKB: putting the pieces together for glycomics research.', Proteomics, 11, pp. 4117 - 4121, http://dx.doi.org/10.1002

Li SS; Xu K; Wilkins MR, 2011, 'Visualization and analysis of the complexome network of Saccharomyces cerevisiae', Journal of Proteome Research, 10, pp. 4744 - 4756, http://dx.doi.org/10.1021/pr200548c

Twine NA; Janitz K; Wilkins MR; Janitz M, 2011, 'Whole transcriptome sequencing reveals gene expression and splicing differences in brain regions affected by Alzheimer's disease', PLoS One, 6, pp. e16266, http://dx.doi.org/10.1371/journal.pone.0016266

Erce MA; Low J; Wilkins MR, 2010, 'Analysis of the RNA degradosome complex in Vibrio angustum S14', FEBS Journal, 277, pp. 5161 - 5173, http://dx.doi.org/10.1111/j.1742-4658.2010.07934.x

Wilkins MR, 2010, 'GlycoViewer: a tool for visual summary and comparative analysis of the glycome.', Nucleic Acids Research, 38, pp. 667 - 670

Wilkins MR, 2010, 'Identification of arginine- and lysine-methylation in the proteome of Saccharomyces cerevisiae and its functional implications', BMC Genomics, 11, pp. 92

Wilkins MR, 2010, 'Proteins deleterious on overexpression are associated with high intrinsic disorder, specific interaction domains, and low abundance.', Journal of Proteome Research, 9, pp. 1218 - 1225

Okoli AS; Wilkins MR; Raftery MJ; Mendz GL, 2010, 'Response of Helicobacter hepaticus to bovine bile', Journal of Proteome Research, 9, pp. 1374 - 1384

Kaakoush NO; Man SM; Lamb S; Raftery MJ; Wilkins MR; Kovach Z; Mitchell HM, 2010, 'The secretome of Campylobacter concisus.', FEBS Journal, 277, pp. 1606 - 1617

Fung DCY; Wilkins MR; Hart D; Hong S-H, 2010, 'Using the clustered circular layout as an informative method for visualizing protein-protein interaction networks.', Proteomics, 10, pp. 2327 - 2723, http://dx.doi.org/10.1002/pmic.201000046

Wilkins M, 2009, 'A celebration of protein-protein interactions', Proteomics, 9, pp. 5207 - 5208, http://dx.doi.org/10.1002/pmic.200990092

Wilkins MR, 2009, 'Hares and tortoises: The high- versus low-throughput proteomic race', Electrophoresis, 30, pp. S150 - S155, http://dx.doi.org/10.1002/elps.200900175

Erce MA; Low J; March P; Wilkins MR; Takayama KM, 2009, 'Identification and functional analysis of RNase E of Vibrio angustum S14 and two-hybrid analysis of its interaction partners', Biochimica et Biophysica ACTA - Proteins and Proteomics, 1794, pp. 1107 - 1114

Little P; Williams RA; Wilkins MR, 2009, 'Inter-individual variation in expression: a missing link in biomarker biology?', Trends in Biotechnology, 27, pp. 5 - 10


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