By Professor Marc Wilkins

Journal articles

Peitsch MC; Wilkins MR; Tonella L; Sanchez JC; Appel RD; Hochstrasser DF, 1997, 'Large-scale protein modelling and integration with the SWISS-PROT and SWISS-2DPAGE databases: The example of Escherichia coli', Electrophoresis, 18, pp. 498 - 501, http://dx.doi.org/10.1002/elps.1150180326

Pennington SR; Wilkins MR; Hochstrasser DF; Dunn MJ, 1997, 'Proteome analysis: From protein characterization to biological function', Trends in Cell Biology, 7, pp. 168 - 173, http://dx.doi.org/10.1016/S0962-8924(97)01033-7

Sarto C; Marocchi A; Sanchez JC; Giannone D; Frutiger S; Golaz O; Wilkins MR; Doro G; Cappellano F; Hughes G; Hochstrasser DF; Mocarelli P, 1997, 'Renal cell carcinoma and normal kidney protein expression', Electrophoresis, 18, pp. 599 - 604, http://dx.doi.org/10.1002/elps.1150180343

Sanchez JC; Wirth P; Jaccoud S; Appel RD; Sarto C; Wilkins MR; Hochstrasser DF, 1997, 'Simultaneous analysis of cyclin and oncogene expression using multiple monoclonal antibody immunoblots', Electrophoresis, 18, pp. 638 - 641, http://dx.doi.org/10.1002/elps.1150180349

Yan JX; Tonella L; Sanchez JC; Wilkins MR; Packer NH; Gooley AA; Hochstrasser DF; Williams KL, 1997, 'The Dictyostelium discoideum proteome - The SWISS-2DPAGE database of the multicellular aggregate (slug)', Electrophoresis, 18, pp. 491 - 497, http://dx.doi.org/10.1002/elps.1150180325

Sanchez JC; Schaller D; Ravier F; Golaz O; Jaccoud S; Belet M; Wilkins MR; James R; Deshusses J; Hochstrasser D, 1997, 'Translationally condrolled tumor protein: A protein identified in several nontumoral cells including erythrocytes', Electrophoresis, 18, pp. 150 - 155, http://dx.doi.org/10.1002/elps.1150180127

Wilkins MR; Sanchez JC; Gooley AA; Appel RD; Humphery-Smith I; Hochstrasser DF; Williams KL, 1996, 'Progress with proteome projects: Why all proteins expressed by a genome should be identified and how to do it', Biotechnology and Genetic Engineering Reviews, 13, pp. 19 - 50, http://dx.doi.org/10.1080/02648725.1996.10647923

Yan JX; Wilkins MR; Ou K; Gooley AA; Williams KL; Sanchez JC; Golaz O; Pasquali C; Hochstrasser DF, 1996, 'Large-scale amino-acid analysis for proteome studies', Journal of Chromatography A, 736, pp. 291 - 302, http://dx.doi.org/10.1016/0021-9673(95)01285-0

Wilkins MR; Ou K; Appel RD; Sanchez JC; Yan JX; Golaz O; Farnsworth V; Cartier P; Hochstrasser DF; Williams KL; Gooley AA, 1996, 'Rapid protein identification using N-terminal "Sequence tag" and amino acid analysis', Biochemical and Biophysical Research Communications, 221, pp. 609 - 613, http://dx.doi.org/10.1006/bbrc.1996.0643

Ou K; Wilkins MR; Yan JX; Gooley AA; Fung Y; Sheumack D; Williams KL, 1996, 'Improved high-performance liquid chromatography of amino acids derivatised with 9-fluorenylmethyl chloroformate', Journal of Chromatography A, 723, pp. 219 - 225, http://dx.doi.org/10.1016/0021-9673(95)00879-9

Wheeler CH; Berry SL; Wilkins MR; Corbett JM; Ou K; Gooley AA; Humphery-Smith I; Williams KL; Dunn MJ, 1996, 'Characterisation of proteins from two-dimensional electrophoresis gels by matrix-assisted laser desorption mass spectrometry and amino acid compositional analysis', Electrophoresis, 17, pp. 580 - 587, http://dx.doi.org/10.1002/elps.1150170329

Packer NH; Wilkins MR; Golaz O; Lawson MA; Gooley AA; Hochstrasser DF; Redmond JW; Williams KL, 1996, 'Characterization of human plasma glycoproteins separated by two-dimensional gel electrophoresis', Bio/Technology, 14, pp. 66 - 70, http://dx.doi.org/10.1038/nbt0196-66

Wilkins MR; Sanchez JC; Williams KL; Hochstrasser DF, 1996, 'Current challenges and future applications for protein maps and post-translational vector maps in proteome projects', Electrophoresis, 17, pp. 830 - 838, http://dx.doi.org/10.1002/elps.1150170504

Wilkins MR; Pasquali C; Appel RD; Ou K; Golaz O; Sanchez JC; Yan JX; Gooley AA; Hughes G; Humphery-Smith I; Williams KL; Hochstrasser DF, 1996, 'From proteins to proteomes: Large scale protein identification by two-dimensional electrophoresis and amino acid analysis', Bio/Technology, 14, pp. 61 - 65, http://dx.doi.org/10.1038/nbt0196-61

Golaz O; Wilkins MR; Sanchez JC; Appel RD; Hochstrasser DF; Williams KL, 1996, 'Identification of proteins by their amino acid composition: An evaluation of the method', Electrophoresis, 17, pp. 573 - 579, http://dx.doi.org/10.1002/elps.1150170328

Wilkins MR; Hochstrasser DF; Sanchez JC; Bairoch A; Appel RD, 1996, 'Integrating two-dimensional gel databases using the Melanie II software', Trends in Biochemical Sciences, 21, pp. 496 - 497, http://dx.doi.org/10.1016/S0968-0004(96)30043-1

Wilkins MR; Gasteiger E; Sanchez JC; Appel RD; Hochstrasser DF, 1996, 'Protein identification with sequence tags', Current Biology, 6, pp. 1543 - 1544, http://dx.doi.org/10.1016/S0960-9822(02)70764-1

Pasquali C; Frutiger S; Wilkins MR; Hughes GJ; Appel RD; Bairoch A; Schaller D; Sanchez JC; Hochstrasser DF, 1996, 'Two-dimensional gel electrophoresis of Escherichia coli homogenates: The Escherichia coli SWISS-2DPAGE database', Electrophoresis, 17, pp. 547 - 555, http://dx.doi.org/10.1002/elps.1150170325

Wilkins MR; Williams KL, 1995, 'The extracellular matrix of the Dictyostelium discoideum slug', Experientia, 51, pp. 1189 - 1196, http://dx.doi.org/10.1007/BF01944736

Zhou-Chou T; Wilkins MR; Vabdy PH; Gooley AA; Williams KL, 1995, 'Glycoprotein complexes interacting with cellulose in the "cell print" zones of the Dictyostelium discoideum extracellular matrix', Developmental Biology, 168, pp. 332 - 341, http://dx.doi.org/10.1006/dbio.1995.1084

Cordwell SJ; Wilkins MR; Poljak A; Gooley AA; Duncan MW; Williams KM; Humphery-Smith I, 1995, 'Cross-species identification of proteins separated by two-dimensional gel electrophoresis using MALDI-TOF mass spectrometry and amino acid composition', Electrophoresis, 16, pp. 438 - 443

Wasinger VC; Cordwell SJ; Poljak A; Yan JX; Gooley AA; Wilkins MR; Duncan MW; Harris RI; Williams KM; Humphery-Smith I, 1995, 'Progress with gene-product mapping of the mollicutes: mycroplasma genitalium', Electrophoresis, 16, pp. 1090 - 1094

Hunt SMN; Wilkins MR; Stokes HW; Daggard GE; Frankham R, 1992, 'Induced expression of a Drosophila hsp70 promoter-fusion transgene is reduced after repeated heat shocks', Genetical Research, 59, pp. 183 - 188, http://dx.doi.org/10.1017/S0016672300030469

Conference Papers

Anande G; Unnikrishnan A; Deshpande N; Mareschal S; Batcha AMN; Herold T; Lehmann S; Wilkins M; Wong J; Pimanda J, 2019, 'Identification of Recurrent Alternative RNA Splicing in Adverse-Risk Acute Myeloid Leukemia', in BLOOD, AMER SOC HEMATOLOGY, FL, Orlando, presented at 61st Annual Meeting and Exposition of the American-Society-of-Hematology (ASH), FL, Orlando, 07 December 2019 - 10 December 2019, http://dx.doi.org/10.1182/blood-2019-129537

Paramsothy S; Kamm MA; Nielsen S; Deshpande N; Faith J; Clemente JC; Paramsothy R; Walsh A; van den Bogaerde J; Samuel D; Leong RW; Connor SJ; Ng WSW; Lin E; Wilkins M; Colombel JF; Borody TJ; Mitchell HM; Kaakoush NO, 2018, 'IN FECAL MICROBIOTA TRANSPLANTATION (FMT) FOR ULCERATIVE COLITIS, FUSOBACTERIUM IS ASSOCIATED WITH LACK OF REMISSION, WHILE METABOLIC SHIFTS TO STARCH DEGRADATION AND SHORT CHAIN FATTY ACID PRODUCTION ARE ASSOCIATED WITH REMISSION - RESULTS FROM THE RANDOMIZED CONTROLLED FOCUS STUDY', in GASTROENTEROLOGY, W B SAUNDERS CO-ELSEVIER INC, DC, Washington, pp. S35 - S35, presented at Annual Meeting of the American-Society-for-Gastrointestinal-Endoscopy / Digestive Disease Week, DC, Washington, 02 June 2018 - 05 June 2018, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000450011100099&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Kim KW; Allen DW; Briese T; Pang CN; Jain K; Horton JL; Isaacs SR; Wilkins MR; Couper J; Penno MAS; Harrison LC; Morahan G; Harris M; Cotterill AM; Morbey C; Barry SC; Haynes A; Davis E; Colman P; Giles L; Dodd J; Wentworth J; Sinnott R; Papenfuss TA; Vuillermin P; Lipkin WI; Rawlinson WD; Craig ME, 2017, 'Gut Virome Dynamics during Pregnancy in Mothers with Type 1 Diabetes', in DIABETES, AMER DIABETES ASSOC, pp. LB51 - LB51, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000463087200189&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Horton JL; Kim KW; Pang CN; Jain K; Leung P; Isaacs SR; Bull RA; Luciani F; Wilkins MR; Lipkin WI; Rawlinson WD; Briese T; Craig ME, 2017, 'Virome-Capture Sequencing of the Gut and Plasma Virome in Children with Islet Autoimmunity', in DIABETES, AMER DIABETES ASSOC, pp. LB51 - LB52, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000463087200190&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Twine N; Pang C; Chen L; Wilkins M; Kassem M, 2013, 'Identification of differentiation-stage specific molecular markers for the osteoblastic phenotype', in JOURNAL OF BONE AND MINERAL RESEARCH, WILEY-BLACKWELL, MD, Baltimore, presented at Annual Meeting of the American-Society-for-Bone-and-Mineral-Research, MD, Baltimore, 04 October 2013 - 07 October 2013, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000332035801271&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Chia S; Wilkins M, 2013, 'Post-translational arginine methylation during yeast quiescence', in YEAST, WILEY-BLACKWELL, GERMANY, Frankfurt Main, pp. 187 - 187, presented at 26th International Conference on Yeast Genetics and Molecular Biology, GERMANY, Frankfurt Main, 29 August 2013 - 03 September 2013, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000327927400396&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Al-Shabeeb A; ALSHABEEB AKIL AS; FINLAY A; HARDIKAR A; PANG C; WILKINS MR; RAWLINSON WD; Craig ME, 2013, 'MicroRNA Expression Profiling Reveals Disease-Associated Signatures in Type 1 Diabetes Cellular Models', AMERICAN DIABETES ASSOCIATION, Chicago, USA, pp. A556 - A587, presented at American Diabetes Association 37th Scientific meeting, Chicago, USA, 21 June 2013 - 25 June 2013, http://dx.doi.org/10.2337/db13-2161-2296

Conference Posters

Vazquez Campos X; Kinsela AS; Wilkins MR; Payne TE; Waite D, 2017, 'Phylogenomics of a radioactive legacy site reveals new Archaea phyla of unknown function', Sydney, Australia, presented at Sydney Bioinformatics Research Symposium 2017, Sydney, Australia, 13 June 2017 - 13 June 2017

Dong C; Vazquez Campos X; Deshpande NANDAN; Zhang P; Wilkins M; Park RF, 2017, 'Understanding oat stem rust pathogen genome by PacBio sequencing', Sydney, Australia, presented at Sydney Bioinformatics Research Symposium 2017, Sydney, Australia, 13 June 2017 - 13 June 2017

Deshpande N; Wilkins M; Mitchell H; Kaakoush N, 2016, 'Deciphering the role of Campylobacter concisus in host pathogenesis using multi-omics techniques', Charles Perkins Centre, University of Sydney, presented at SBRS 2016, Charles Perkins Centre, University of Sydney, 22 July 2016 - 22 July 2016

CORLEY SM; Wilkins MR, 2016, 'RNA-Seq: Is paired-end sequencing always better for gene expression analysis', Sydney, presented at SBRS 2016, Sydney, 22 July 2016 - 22 July 2016

Deshpande N; Wilkins M; Mitchell H; Kaakoush NO, 2016, 'SBRS 2016', Charles Perkins Centre, University of Sydney, presented at SBRS 2016, Charles Perkins Centre, University of Sydney, 22 July 2016 - 22 July 2016, http://www.abacbs.org/sbrs_2016/

Kaakoush NO; Mitchell H; Wilkins M; Deshpande N, 2013, 'Comparative genomics of eight Campylobacter concisus isolates provides insights into pathogenesis', presented at Lorne Genome Conference 2013, 17 February 2013 - 19 February 2013

Conference Presentations

Carter A; Lai YW; Pang CNI; Campbell LT; Truong M; Chen S; Wilkins M, 2014, 'Understanding synergy between iron chelators and antifungals using gene co-expression networks', http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=000335090600227&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Conference Abstracts

Katelaris A; Canagasingham A; Ni J; Deshpande N; Malouf D; Bucci J; Thompson J; Bai X; Pang B; Zhu Y; Wilkins M; Graham P; Li Y, 2022, 'Isolation of exosomal microRNA to serve as a diagnostic biomarker for prostate cancer: A provisional analysis of 12 patients', in BJU INTERNATIONAL, WILEY, AUSTRALIA, Gold Coast, Vol. 129, pp. 140 - 140, presented at Annual Scientific Meeting of the Urological-Society-of-Australia-and-New Zealand, AUSTRALIA, Gold Coast, 25 June 2022 - 28 June 2022, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000808481200227&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Paramsothy S; Kamm M; Nielsen S; Deshpande N; Faith J; Clemente J; Paramsothy R; Walsh A; van den Bogaerde J; Samuel D; Leong R; Connor S; Ng W; Lin E; Wilkins M; Colombel J-F; Borody T; Mitchell H; Kaakoush N, 2018, 'In faecal microbiota transplantation (FMT) for ulcerative colitis, fusobacterium is associated with lack of remission, while metabolic shifts to starch degradation and short-chain fatty acid production are associated with remission (FOCUS study)', in JOURNAL OF CROHNS & COLITIS, OXFORD UNIV PRESS, Vol. 12, pp. S13 - S14

Software / Code

Van Dyk DD; Misztal D; Wilkins MR; Mackintosh JA; Walsh BR; Gray PP, 1999, Chinese hamster ovary two dimensional polyacrylamide gel electrophonesis database, Video, Published: 1999, Software / Code

Preprints

Su G; Wang H; Zhang Y; Coster ACF; Wilkins MR; Canete PF; Yu D; Yang Y; Zhang W, 2024, Inferring gene regulatory networks by hypergraph variational autoencoder, , http://dx.doi.org/10.1101/2024.04.01.586509

Manandhar B; Pandzic E; Deshpande N; Chen S-Y; Wasinger V; Kockx M; Glaros E; Ong KL; Thomas SR; Wilkins MR; Whan RM; Cochran BJ; Rye K-A, 2023, ApoA-I Protects Pancreatic β-cells from Cholesterol-induced Mitochondrial Damage and Restores their Ability to Secrete Insulin, , http://dx.doi.org/10.1101/2023.04.03.535492

Bartolec TK; Vázquez-Campos X; Norman A; Luong C; Payne RJ; Wilkins MR; Mackay JP; Low JKK, 2022, Cross-linking mass spectrometry discovers, evaluates, and validates the experimental and predicted structural proteome, , http://dx.doi.org/10.1101/2022.11.16.516813

Kopecky C; Haug M; Reischl B; Deshpande N; Manandhar B; King T; Lee V; Wilkins M; Morris M; Polly P; Friedrich O; Rye K-A; Cochran B, 2022, Effect of insulin insufficiency on ultrastructure and function in skeletal muscle, , http://dx.doi.org/10.1101/2022.12.18.520900

Kronen M; Vázquez-Campos X; Wilkins M; Lee M; Manefield M, 2022, Evidence for a putative isoprene reductase inAcetobacterium wieringae, , http://dx.doi.org/10.1101/2022.11.16.516518

Bell KJ; Saad S; Tillett BJ; McGuire HM; Bordbar S; Yap YA; Nguyen LT; Wilkins MR; Corley S; Brodie S; Duong S; Wright CJ; Twigg S; de St Groth BF; Harrison LC; Mackay CR; Gurzov EN; Hamilton-Williams EE; Mariño E, 2021, Metabolite-based dietary supplementation in human type 1 diabetes is associated with microbiota and immune modulation, , http://dx.doi.org/10.1101/2021.09.15.21263059

Bayat A; Gamaarachchi H; Deshpande N; Wilkins M; Parameswaran S, 2020, Methods for De-novo Genome Assembly, , http://dx.doi.org/10.20944/preprints202006.0324.v1

Kasumovic M; Chen Z; Wilkins MR, 2016, Australian black field crickets show changes in neural gene expression associated with socially-induced morphological, life-history, and behavioral plasticity, , http://dx.doi.org/10.7287/peerj.preprints.1941

Kasumovic M; Chen Z; Wilkins MR, 2016, Australian black field crickets show changes in neural gene expression associated with socially-induced morphological, life-history, and behavioral plasticity, , http://dx.doi.org/10.7287/peerj.preprints.1941v1

Wilkins MR; Appel RD; Van Eyk JE; Chung MCM; Görg A; Hecker M; Huber LA; Langen H; Link AJ; Paik Y-K; Patterson SD; Pennington SR; Rabilloud T; Simpson RJ; Weiss W; Dunn MJ, 2009, Guidelines for the next 10 years of proteomics, , http://dx.doi.org/10.48550/arxiv.0904.0788

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