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"Masters of evolution". Image by Prof. Steffen Backert.

"Masters of evolution". Image by Prof. Steffen Backert.

UCD Biomolecular & Biomedical Science

UCD School of Biomolecular & Biomedical Science - Research Publications 2011/12

Below is the list of research publications for the UCD School of Biomolecular & Biomedical Science in the academic year 2011/12




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Book Chapters
Professor Steffen Backert
Tegtmeyer N, Rohde M, Backert S (2012) 'Clinical presentations and pathogenicity mechanisms of bacterial foodborne diseases' In: O.A. Oyarzabal & S. Backert (eds). Microbial Food Safety. New York London: Springer Verlag.  
Oyarzabal OA, Backert S (2012) 'Food safety resources' In: O.A. Oyarzabal & S. Backert (eds). Microbial Food Safety. New York London: Springer Verlag.  
Professor Geraldine Butler
Butler G, Lorenz M, Gow NAR (2012) 'Evolution and genomics of the pathogenic Candida species complex' In: L. David Sibley, Barbara J. Howlett, Joseph Heitman (eds). Evolution of Virulence in Eukaryotic Microbes. New Jersey: Wiley-Blackwell.  
Butler, G; (2012) 'Comparative genomics of Candida species' In: Candida and Candidiasis, 2nd edition. Washington, DC: ASM Press.  
Dr Gerard Cagney
Ryan C, Cagney G, Krogan NJ, Cunningham P, Greene D (2011) ''Imputing and predicting quantitative genetic interactions in epistatic MAPs' In: Network Biology: Methods and Applications (Methods in Molecular Biology). USA: Springer Verlag. Available Online  
Dr Tara McMorrow
O'Connell S, Nolan S, Slattery C, Ryan MP, McMorrow T. (2012) 'The role of Transglumatinase in Kidney Disease' In: Fibronectin and Disease. Croatia: Intech.  
Slattery C, Cassidy H, Johnston O, Ryan MP and McMorrow T (2012) 'Mechanisms of calcineurin inhibitor nephrotoxicity in chronic allograft injury' In: Chronic Kidney Disease and Renal Transplantation. India: Research Signpost.  
Dr Cormac Declan Murphy
Brennan L, Mostaert A, Murphy C & Owende, P (2012) 'Phytochemicals from Algae' In: Carrier J, Ramaswamy S, Bergeron C (eds). Biorefinery Co-Products: Phytochemicals, Primary Metabolites and Value-added Biomass Processing. Chicester: Wiley.  
Dr Keith Murphy
O'Sullivan NC, Sheridan GK, Murphy KJ; (2012) 'Transcriptional profiling of hippocampal memory-associated synaptic plasticity: Old friends and new faces' In: Transcription Factors CREB and NF-κB: Involvement in Synaptic Plasticity and Memory Formation. E-Book: Bentham.  
Professor Philip Newsholme
Newsholme P, Gaudel C, Krause M (2012) 'Mitochondria and diabetes. An intriguing pathogenetic role' In: Roberto Scatena, P Bottoni B Giardina (eds). Advances in Experimental Medical Biology. New York London: Springer.  
Dr Jens Erik Nielsen
Johnston MA, Nielsen JE (2011) 'Constructing and Evaluating Predictive Models for Protein Biophysical Characteristics' In: Ralph Wheeler (eds). Annual Reports in Computational Chemistry. Amsterdam: Elsevier.  
Professor Dominic Walsh
Teplow DB and Walsh DM (2012) 'Alzheimer's disease and the amyloid beta-protein in The Molecular Biology of Neurodegenerative Diseases' In: Progress in Molecular Biology and Translational Science. Elsevier: Academic Press.  
Byrne S, Rowland LP, VonsattelJPF, Welzel AT, Walsh DM and Hardiman O (2011) 'Common Themes in the Pathogenesis of Neurodegeneration' In: O. Hardiman and C. Doherty (eds). Neurodegenerative Disorders. London: Springer.  

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Books Edited
Professor Steffen Backert
Oyarzabal OA, Backert S (Ed.). (2012) Microbial Food Safety: an introduction. New York London: Springer Verlag.  
Dr Gerard Cagney
Cagney G, and Emili A (Ed.). (2011) Network Biology: Methods and Applications (Methods in Molecular Biology). New York London:: Springer.  
Dr Chandralal Hewage
Hewage C (Ed.). (2012) EUROMAR 2012. Keynote Dublin: Keynote.  

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Peer Reviewed Journals
Professor Steffen Backert
Hirsch C, Tegtmeyer N, Rohde M, Rowland M, Oyarzabal OA, Backert S. (2012) 'Live Helicobacter pylori in the root canal of endodontic-infected deciduous teeth'. Journal of gastroenterology, 47 (8).  
Conradi J, Huber S, Gaus K, Mertink F, Gracia SR, Strijowski U, Backert S, Sewald N (2012) 'Cyclic RGD peptides interfere with binding of the Helicobacter pylori protein CagL'. Amino Acids, 43 :219-232.  
Backert S, Tegtmeyer N (2012) 'Helicobacter pylori CagA tertiary structure reveals functional insights'. Cell Host and Microbe, 12 (1):3-5.  
Smolka A, Backert S (2012) 'How Helicobacter pylori infection controls gastric acid secretion'. Gastroenterology, 47 (6):609-618.  
Conradi J, Tegtmeyer N, Huber, S, Gaus, K, Mertink F, Gracia SR, Strijowski U, Sewald N, Backert S (2012) 'An RGD Helper Sequence in CagL of Helicobacter pylori Assists in Interactions with Integrins and Injection of CagA'. Frontiers in Cellular and Infection Microbiology, 2 (70).  
Mueller D, Tegtmeyer N, Brandt S, Yamaoka Y, De Poire E, Sgouras D, Wessler S, Torres J, Smolka A, Backert S. (2012) 'c-Src and c-Abl kinases control hierarchic phosphorylation and function of the CagA effector protein in Western and East Asian Helicobacter pylori strains'. The Journal of clinical investigation, 122 :1553-1566.  
Boehm, M, Hoy B, Rohde M, Tegtmeyer N, Baek KT, Oyarzabal OA, Brondsted L, Wessler S, Backert S (2012) 'Rapid paracellular transmigration of Campylobacter jejuni across polarized epithelial cells without affecting TER: role of proteolytic-active HtrA cleaving E-cadherin but not fibronectin'. Gut Pathogens, 4 (1).  
O'Croinin T, Backert S. (2012) 'Host epithelial cell invasion by Campylobacter jejuni: trigger or zipper mechanism?'. Frontiers in Cellular and Infection Microbiology, 2 (25).  
Hoy B, Geppert T, Reisen F, Boehm M, Plattner, P, Gadermaier G, Sewald N, Ferreira F, Briza P, Schneider G, Backert S, Wessler S (2012) 'Distinct roles of HtrA proteases from different Gram-negative bacteria in cleaving the junctional protein and tumor suppressor E-cadherin'. Journal of Biological Chemistry, 287 (13):10115-10120.  
Golz S, Sharbati S, Backert S, Alter T (2012) 'Quorum sensing dependant phenotypes and their molecular mechanisms in Campylobacterales'. European Journal of Microbiology and Immunology, 2 :50-60.  
Wiedemann T, Hofbaur S, Tegtmeyer N, Huber S, Sewald N, Wessler S, Backert S., Rieder G. (2012) 'Helicobacter pylori CagL-dependent induction of gastrin expression via a novel αvβ5-integrin-integrin linked kinase signalling complex'. Gut, 61 :986-996.  
Boehm M, Krause M, Rohde M, Tegtmeyer N, Takahashi S, Oyarzabal OA Backert S (2011) 'Major host factors in host cell invasion of Campylobacter jejuni: Role of fibronectin, Integrin Beta1, FAK, Tiam-1, and DOCK180 in activating Rho GTPase Rac1'. Frontiers in Cellular and Infection Microbiology, 1 (17).  
Krause M, Boehm M, Rohde M, Tegtmeyer N, Takahashi S, Buday L, Oyarzabal OA, Backert S (2011) 'The signaling pathway of Campylobacter jejuni-induced Cdc42 activation: Role of fibronectin, integrin beta1, tyrosine kinases and guanine exchange factor Vav2'. Cell Communication and Signaling, 9 (32).  
Backert S, Clyne M, Tegtmeyer N (2011) 'Molecular mechanisms of gastric epithelial cell adhesion and injection of CagA by Helicobacter pylori'. Cell Communication and Signaling, 9 :28-35.  
Tegtmeyer N, Backert S (2011) 'Role of Abl and Src family kinases in actin-cytoskeletal rearrangements induced by the Helicobacter pylori CagA protein'. European Journal of Cell Biology, 90 (11):880-940.  
Backert S and Clyne M (2011) 'Pathogenesis of Helicobacter pylori infection'. Helicobacter, 16 (Supplement 1):19-25.  
Dr Orina Belton
Mooney D, McCarthy C, Belton O (2012) 'Effects of conjugated linoleic acid isomers on monocyte, macrophage and foam cell phenotype in atherosclerosis'. Prostaglandins & other lipid mediators, 98 (3-4):56-62.  
Reynolds CM, Toomey S, McBride R, McMonagle J, Morine MJ, Belton O, Moloney AP, Roche HM (2012) 'Divergent effects of a CLA-enriched beef diet on metabolic health in ApoE(-/-) and ob/ob mice'. Journal of Nutritional Biochemistry, Epub ahead of print .  
Duffy MM, Pindjakova J, Hanley SA, McCarthy C, Weidhofer GA, Sweeney EM, English K, Shaw G, Murphy JM, Barry FP, Mahon BP, Belton O, Ceredig R, Griffin MD; (2011) 'Mesenchymal stem cell inhibition of T-helper 17 cell- differentiation is triggered by cell-cell contact and mediated by prostaglandin E2 via the EP4 receptor'. J IMMUNOL, 41 (10):2840-2851.  
Dr Oliver Blacque
Radford R, Slattery C, Jennings P, Blaque O, Pfaller W, Gmuender H, Van Delft J, Ryan MP, McMorrow T. (2012) 'Carcinogens induce loss of the primary cilium in human renal proximal tubular epithelial cells independently of effects on the cell cycle'. American Journal of Physiology-Renal Physiology, 302 (8):905-916.  
Kaplan OI, Doroquez DB, Cevik S, Bowie RV, Clarke L, Sanders AAWM, Kida K, Rappoport JZ, Sengupta P and Blacque OE (2012) 'Endocytosis Genes Facilitate Protein and Membrane Transport in C. elegans Sensory Cilia'. Current Biology, 22 (6):451-460.  
Reynolds AL, Blacque OE, Kennedy BN. (2012) 'The genetics of outer segment morphogenesis in zebrafish'. Advances in Experimental Medical Biology, 723 :431-441. Available Online  
Reiter JF, Blacque OE, Leroux MR. (2012) 'The base of the cilium: roles for transition fibres and the transition zone in ciliary formation, maintenance and compartmentalization'. Embo Reports, 13 (7):608-618.  
Huang L, Szymanska K, Jensen VL, Janecke AR, Innes AM, Davis EE, Frosk P, Li C, Willer JR, Chodirker BN, Greenberg CR, McLeod DR, Bernier FP, Chudley AE, Muller T, Shboul M, Logan CV, Loucks CM, Beaulieu CL, Bowie RV, Bell SM, Adkins J, Zuniga FI, Ross KD, Wang J, Ban MR, Becker C, Nurnberg P, Douglas S, Craft CM, Akimenko MA, Hegele RA, Ober C, Utermann G, Bolz HJ, Bulman DE, Katsanis N, Blacque OE, Doherty D, Parboosingh JS, Leroux MR, Johnson CA, Boycott KM. (2011) 'TMEM237 is mutated in individuals with a Joubert syndrome related disorder and expands the role of the TMEM family at the ciliary transition zone'. American Journal of Human Genetics, 89 (6):713-730. Available Online  
Professor Geraldine Butler
Riccombeni1 A, Vidanes1 G, Proux-Wera E, Wolfe KH, Butler G (2012) 'Sequence and analysis of the genome of the pathogenic yeast Candida orthopsilosis'. PLoS ONE, 7 (e35750).  
Guida A, Lindstaedt C, Maguire SL, Ding C, Higgins DG, Corton NJ, Berriman M, Butler G; (2011) 'Using RNA-seq to determine the transcriptional landscape and the hypoxic response of the pathogenic yeast Candida parapsilosis'. BMC Genomics, 12 .  
Ding C, Vidanes GM, Maguire SL, Guida A, Synnott JM, Andes DR, Butler G (2011) 'Conserved and Divergent Roles of Bcr1 and CFEM Proteins in Candida parapsilosis and Candida albicans'. PLoS ONE, 6 .  
Dr Patrick Caffrey
Stephens N, Rawlings B, Caffrey P (2012) 'Streptomyces nodosus host strains optimised for glycosylation engineering'. Bioscience Biotechnology and Biochemistry, 76 (2):384-387.  
Dr Gerard Cagney
Ryan CJ, Roguev A, Patrick K, Xu J, Jahari H, Tong Z, Beltrao P, Shales M, Qu H, Collins SR, Kliegman JI, Jiang L, Kuo D, Tosti E, Kim HS, Edelmann W, Keogh MC, Greene D, Tang C, Cunningham P, Shokat KM, Cagney G, Svensson JP, Guthrie C, Espenshade PJ, Ideker T, Krogan NJ (2012) 'Hierarchical Modularity and the Evolution of Genetic Interactomes across Species'. Molecular cell, 46 (5):691-704.  
Hunkapiller J, Shen Y, Diaz A, Cagney G, McCleary D, Ramalho-Santos M, Krogan N, Ren B, Song JS, Reiter JF (2012) 'Polycomb-like 3 promotes polycomb repressive complex 2 binding to CpG islands and embryonic stem cell self-renewal'. PLoS Genetics, 8 (3).  
Jager S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Li K, Hernandez H, Jang GM, Roth SL, Akiva E, Marlett J, Stephens M, D'Orso I, Fernandes J, Fahey M, Mahon C, O'Donoghue AJ, Todorovic A, Morris JH, Maltby DA, Alber T, Cagney G, Bushman FD, Young JA, Chanda SK, Sundquist WI, Kortemme T, Hernandez RD, Craik CS, Burlingame A, Sali A, Frankel AD, Krogan NJ (2011) 'Global landscape of HIV-human protein complexes'. Nature, 481 (7381):365-370.  
Dr John Crean
O'Donovan HC, Hickey F, Brazil DP, Kavanagh DH, Oliver N, Martin F, Godson C, Crean J (2012) 'Connective tissue growth factor antagonizes transforming growth factor-β1/Smad signalling in renal mesangial cells'. Biochem J, 441 :499-510.  
Professor Paul Engel
Engel, P.C. (2011) 'A marriage full of surprises: forty-five years living with glutamate dehydrogenase'. Neurochemistry International, 59 (4):489-494. Available Online  
Professor William Gallagher
Collins BC, Miller CA, Sposny A, Hewitt P, Wells M, Gallagher WM, Pennington SR (2012) 'Development of a pharmaceutical hepatotoxicity biomarker panel using a discovery to targeted proteomics approach'. Molecular & Cellular Proteomics, 11 (8):394-410.  
Joyce CW, Murphy IG, Rafferty M, Ryan D, McDermott EW, Gallagher WM (2012) 'Tumor profiling using protein biomarker panels in malignant melanoma: application of tissue microarrays and beyond'. Expert Review of Proteomics, 9 (9):415-423.  
Brennan DJ, O'Connor DP, Laursen H, McGee SF, McCarthy S, Zagozdzon R, Rexhepaj E, Culhane AC, Martin FM, Duffy MJ, Landberg G, Ryden L, Hewitt SM, Kuhar MJ, Bernards R, Millikan RC, Crown JP, Jirstrom K, Gallagher WM (2012) 'The cocaine- and amphetamine-regulated transcript mediates ligand-independent activation of ERα, and is an independent prognostic factor in node-negative breast cancer'. Oncogene, 31 (30):3483-3494.  
Collins BC, Gallagher WM (2012) 'Focus on cancer proteomics'. Proteomics, 12 (13):2065-2066.  
Geiger T, Madden SF, Gallagher WM, Cox J, Mann M (2012) 'Proteomic portrait of human breast cancer progression identifies novel prognostic markers'. Cancer Research, 72 (9):428-439.  
Zagozdzon AM, O'Leary P, Callanan JJ, Crown J, Gallagher WM, Zagozdzon R (2012) 'Generation of a new bioluminescent model for visualisation of mammary tumour development in transgenic mice'. BMC Cancer, 12 (209).  
Kulbe H, Chakravarty P, Leinster DA, Charles KA, Kwong J, Thompson RG, Coward JI, Schioppa T, Robinson SC, Gallagher WM, Galletta L; Australian Ovarian Cancer Study Group, Salako MA, Smyth JF, Hagemann T, Brennan DJ, Bowtell DD, Balkwill FR (2012) 'A dynamic inflammatory cytokine network in the human ovarian cancer microenvironment'. Cancer research, 72 (1):66-75.  
O'Connor, AE McGee MM, Likar Y, Ponomarev V, Callanan JJ, O'Shea DF, Byrne AT, Gallagher WM (2012) 'Mechanism of Cell Death Mediated by a BF2-Chelated Tetraarylazadipyrromethene Photodynamic Therapeutic'. International Journal of Cancer, 130 (3):705-715.  
Vader P, van der Meel R, Symons MH, Fens MH, Pieters E, Wilschut KJ, Storm G, Jarzabek M, Gallagher WM, Schiffelers RM, Byrne AT (2011) 'Examining the role of Rac1 in tumor angiogenesis and growth: a clinically relevant RNAi-mediated approach'. Angiogenesis, 14 (4):457-466.  
Power KA, Grad S, Rutges JP, Creemers LB, van Rijen MH, O'Gaora P, Wall JG, Alini M, Pandit A, Gallagher WM (2011) 'Identification of cell surface-specific markers to target human nucleus pulposus cells: expression of carbonic anhydrase XII varies with age and degeneration'. Arthritis Rheumatology, 63 (12):3876-3886.  
Maher SG, McDowell DT, Collins BC, Muldoon C, Gallagher WM, Reynolds JV (2011) 'Serum proteomic profiling reveals that pretreatment complement protein levels are predictive of esophageal cancer patient response to neoadjuvant chemoradiation'. Annals of Surgery, 254 (5):809-816.  
O'Donovan N, Byrne AT, O'Connor A E, McGee S, Gallagher W M, and Crown J (2011) 'Synergistic interaction between trastuzumab and EGFR/HER-2 tyrosine kinase inhibitors in HER-2 positive breast cancer cells'. Investigational New Drugs, 29 (5):752-759.  
O'Neill AJ, Prencipe M, Dowling C, Fan Y, Mulrane L, Gallagher WM, O'Connor D, O'Connor R, Devery A, Corcoran C, Rani S, O'Driscoll L, Fitzpatrick JM, Watson RW (2011) 'Characterisation and manipulation of docetaxel resistant prostate cancer cell lines'. MOL CANCER, 10 (126).  
Sernbo S, Gustavsson E, Brennan DJ, Gallagher WM, Rexhepaj E, Rydnert F, Jirstrom K, Borrebaeck CA, Ek S (2011) 'The tumour suppressor SOX11 is associated with improved survival among high grade epithelial ovarian cancers and is regulated by reversible promoter methylation'. BMC Cancer, 11 (405).  
Zagozdzon R, Gallagher WM, Crown, J (2011) 'Truncated HER2: implications for HER2-targeted therapeutics'. Drug Discovery Today, 16 (17-18):812-816.  
Hams E, Saunders SP, Cummins EP, O'Connor A, Tambuwala MT, Gallagher WM, Byrne A, Campos-Torres A, Moynagh PM, Jobin C, Taylor CT, Fallon PG; (2011) 'The hydroxylase inhibitor dimethyloxallyl glycine attenuates endotoxic shock via alternative activation of macrophages and IL-10 production by B1 cells'. Shock, 36 (3):295-302.  
Coward J, Kulbe H, Chakravarty P, Leader D A, Vassileva V, Leinster D A, Thompson R, Schioppa T, Nemeth J A, Vermeulin J, Singh N, Avril N E, Cummings J, Rexhepaj E, Jirstrom K, Gallagher W M, Brennan D J, McNeish I A, Balkwill F R (2011) 'Interleukin-6 as a therapeutic target in human ovarian cancer'. Clinical Cancer Research, 17 (18):6083-6096.  
Dr Carmel Hensey
O'Shea LC, Mehta J, Lonergan P, Hensey C, Fair T (2012) 'Developmental competence in oocytes and cumulus cells: candidate genes and networks'. Systems Biology in Reproductive Medicine, 58 (2):88-101.  
Sapetto-Rebow B, McLoughlin SC, O'Shea LC, O'Leary O, Willer JR, Alvarez Y, Collery R, O'Sullivan J, Van Eeden F, Hensey C, Kennedy BN. (2011) 'Maternal topoisomerase II alpha, not topoisomerase II beta, enables embryonic development of zebrafish top2a-/- mutants'. BMC Developmental Biology, 11 (71).  
Sapetto-Rebow B, McLoughlin SC, O'Shea LC, O'Leary O, Willer JR, Alvarez Y, Collery R, O'Sullivan J, Van Eeden F, Hensey C, Kennedy BN. (2011) 'Maternal topoisomerase II alpha, not topoisomerase II beta, enables embryonic development of zebrafish top2a-/- mutants'. BMC Developmental Biology, 11 .  
Dr Chandralal Hewage
Elsawy MA, Hewage C, Walker B (2012) 'Racemisation of N-Fmoc phenylglycine under mild microwave-SPPS and conventional stepwise SPPS conditions: attempts to develop strategies for overcoming this'. Journal of peptide science : an official publication of the European Peptide Society, 18 (5):302-311.  
Dr Breand?Kennedy
Fichtnera I, Cinatl jr. J, Michaelis M, Sanders LC, Hilger R, Kennedy BN, Reynolds AL, Hackenberg F, Lally G, Quinn SJ, McRae I and Tacke M (2012) 'In Vitro and In Vivo Investigations into the Carbene Silver Acetate'. Letters in Drug Design & Discovery .  
Reynolds AL, Blacque OE, Kennedy BN. (2012) 'The genetics of outer segment morphogenesis in zebrafish'. Advances in Experimental Medical Biology, 723 :431-441. Available Online  
Casey J, Kawaguchi R, Morrissey M, Sun H, McGettigan P, Nielsen JE, Conroy J, Regan R, Kenny E, Cormican P, Morris DW, Tormey P, Ni Chroinin M, Kennedy BN, Lynch S, Green A, Ennis S.; (2011) 'First implication of STRA6 mutations in isolated anophthalmia, microphthalmia, and coloboma: A new dimension to the STRA6 phenotype'. Human Mutation, 32 (12):1417-1426.  
Sapetto-Rebow B, McLoughlin SC, O'Shea LC, O'Leary O, Willer JR, Alvarez Y, Collery R, O'Sullivan J, Van Eeden F, Hensey C, Kennedy BN. (2011) 'Maternal topoisomerase II alpha, not topoisomerase II beta, enables embryonic development of zebrafish top2a-/- mutants'. BMC Developmental Biology, 11 .  
Professor Therese Kinsella
Reid HM, Turner EC, Mulvaney EP, Hyland PB, McLean C, Kinsella BT. (2012) 'Interaction of the human prostacyclin receptor and the NHERF4 family member intestinal and kidney enriched PDZ protein (IKEPP)'. Biochima Et Biophysica Acta - Molecular Cell Research, 1823 (10):1998-2012.  
Keating GL, Turner EC, Kinsella BT. (2012) 'Regulation of the human prostacyclin receptor gene in megakaryocytes: Major roles for C/EBPδ and PU.1'. Biochimica et biophysica acta, 1819 :428-445.  
Dr Patricia Maguire
Steele BM, Harper MT, Smolenski AP, Alkazemi A, Poole AW, Fitzgerald DJ, Maguire PB (2012) 'WNT-3a modulates platelet function by regulating small GTPase activity'. FEBS Letters, 586 (16):2267-2276.  
Professor Jonathan Malthouse
Petrillo T, O'Donohoe CA, Howe N, Malthouse JPG (2012) 'Importance of tetrahedral intermediate formation in the catalytic mechanism of the serine proteases chymotrypsin and subtilisin'. Biochemistry, 51 (31):6164-6170.  
Ceruso M, Howe N, Malthouse JP; (2011) 'Mechanism of the binding of Z-L-tryptophan and Z-L-phenylalanine to thermolysin and stromelysin-1 in aqueous solutions'. Biochimica et biophysica acta, 1824 (2):303-310.  
Dr Gethin McBean
McBean G J (2012) 'The transsulfuration pathway: a source of cysteine for glutathione in astrocytes'. Amino Acids, 42 :199-205.  
Dr Margaret McGee
Bannon JH, O'Donovan DS, Kennelly SM, Mc Gee MM. (2012) 'The peptidyl prolyl isomerase cyclophilin A localizes at the centrosome and the midbody and is required for cytokinesis'. Cell cycle (Georgetown, Tex.), 11 (7):1340-1353.  
O'Connor, AE McGee MM, Likar Y, Ponomarev V, Callanan JJ, O'Shea DF, Byrne AT, Gallagher WM (2012) 'Mechanism of Cell Death Mediated by a BF2-Chelated Tetraarylazadipyrromethene Photodynamic Therapeutic'. International Journal of Cancer, 130 (3):705-715.  
Mac Fhearraigh S, Mc Gee MM (2011) 'Cyclin B1 interacts with the BH3-only protein Bim and mediates its phosphorylation by Cdk1 during mitosis'. Cell cycle (Georgetown, Tex.), 10 (22):3886-3896.  
Dr Hilary McMahon
McMahon HEM (2012) 'Prion processing: a double-edged sword?'. Biochemical Society Transactions, 40 (4):735-738.  
Dr Tara McMorrow
Jennings P, Weiland C, Limonciel A, Bloch KM, Radford R, Aschauer L, McMorrow T, Wilmes A, Pfaller W, Ahr HJ, Slattery C, Lock EA, Ryan MP, Ellinger-Ziegelbauer H. (2012) 'Transcriptomic alterations induced by Ochratoxin A in rat and human renal proximal tubular in vitro models and comparison to a rat in vivo model'. Archives of Toxicology, 86 (4):571-589.  
Radford R, Slattery C, Jennings P, Blaque O, Pfaller W, Gmuender H, Van Delft J, Ryan MP, McMorrow T. (2012) 'Carcinogens induce loss of the primary cilium in human renal proximal tubular epithelial cells independently of effects on the cell cycle'. American Journal of Physiology-Renal Physiology, 302 (8):905-916.  
Cassidy H, Radford R, Slyne J, O'Connell S, Slattery C, Ryan MP, McMorrow T (2012) 'The role of MAPK in drug-induced kidney injury'. Journal of Signal Transduction, 2012 .  
O'Connell S, Tuite N, Slattery C, Ryan MP, McMorrow T. (2012) 'Cyclosporine A-induced oxidative stress in human renal mesangial cells: a role for ERK 1/2 MAPK signaling'. Toxicological sciences : an official journal of the Society of Toxicology, 126 (1):101-113.  
Martin-Martin N, Dan Q, Amoozadeh Y, Waheed F, McMorrow T, Ryan MP, Szaszi K. (2012) 'RhoA and Rho kinase mediate cyclosporine A and sirolimus-induced barrier tightening in renal proximal tubular cells'. International Journal of Biochemistry & Cell Biology, 44 (1):178-188.  
O'Connell S, Slattery C, Ryan MP, McMorrow T. (2012) 'Sirolimus enhances cyclosporine a-induced cytotoxicity in human renal glomerular mesangial cells'. Journal of transplantation, 2012 .  
Martin-Martin N, Slattery C, McMorrow T, Ryan MP. (2011) 'TGF-β1 mediates sirolimus and cyclosporine A-induced alteration of barrier function in renal epithelial cells via a noncanonical ERK1/2 signaling pathway'. American Journal of Physiology-Renal Physiology, 301 (6):1281-1292.  
Ellis JK, Athersuch TJ, Cavill R, Radford R, Slattery C, McMorrow T, Ryan MP, Ebbels TMD, Keun H (2011) 'Metabolic Response to Low Level Toxicant Exposure in a Novel Renal Tubule'. Molecular BioSystems, 7 (1):247-257.  
Professor Wim Meijer
Garcia MS, Carvalho D, Zlydareva O, Muldoon C, Masterson BF, O'Grady MJ, Meijer,WG, O'Sullivan JJ, O'Hare GMP (2012) 'An agent-based wireless sensor network for water quality data collection'. Lecture Notes in Computer Science, 7656 .  
Dr Cormac Declan Murphy
Murphy CD and Sandford G (2012) 'Fluorinated drug metabolism in microorganisms'. Chimica Oggi-Chemistry Today, 30 (3):16-19.  
Murphy C (2012) 'The Microbial Cell Factory'. Organic and Biomolecular Chemistry, 10 (10):1949-1957.  
Lestini, E; Robertson, K; Murphy, CD; Paradisi, F (2012) 'An alternative mild route to the synthesis of 4-methylenecyclohex-2-enone, a key moiety of the anticancer compounds ottelione A and B'. Synthetic Communications, 42 :1864-1876.  
Bright T, Clark B, O'Brien E, and Murphy CD (2011) 'Bacterial production of hydroxylated and amidated metabolites of flurbiprofen'. Journal of Molecular Catalysis B-Enzymatic, 72 :116-121.  
Clark, B.R., O'Connor, S., Fox, D., Leroy, J and Murphy, C.D.; (2011) 'Production of anticancer polyenes through precursor-directed biosynthesis'. Organic and Biomolecular Chemistry, 9 (18):6306-6311.  
Dr Keith Murphy
Scully D, Fedriani R, Desouza IE, Murphy KJ, Regan CM (2012) 'Regional dissociation of paradigm-specific synapse remodeling during memory consolidation in the adult rat dentate gyrus'. Neuroscience, 209 :74-83.  
Monopoli MP, Raghnaill MN, Loscher JS, O'Sullivan NC, Pangalos MN, Ring RH, von Schack D, Dunn MJ, Regan CM, Pennington S, Murphy KJ; (2011) 'Temporal proteomic profile of memory consolidation in the rat hippocampal dentate gyrus'. Proteomics, 11 (21):4189-4201.  
Professor Philip Newsholme
Bortolon JR, Silva Junior AJ, Murata GM, Newsholme P, Curi R, Pithon-Curi TC, Hatanaka E (2012) 'Persistence of inflammatory response to intense exercise in diabetic rats'. Experimental Diabetes Research, 2012 (213986).  
da Silva Krause M, Bittencourt A, Homem de Bittencourt PI Jr, McClenaghan NH, Flatt PR, Murphy C, Newsholme P (2012) 'Physiological concentrations of interleukin-6 directly promote insulin secretion, signal transduction, nitric oxide release, and redox status in a clonal pancreatic β-cell line and mouse islets'. Journal of Endocrinology, 214 (3):301-311.  
Krause M, Rodrigues-Krause J, O'Hagan C, De Vito G, Boreham C, Susta D, Newsholme P, Murphy C (2012) 'Differential nitric oxide levels in the blood and skeletal muscle of type 2 diabetic subjects may be consequence of adiposity: a preliminary study'. Metabolism, Epub June 2012 .  
Rodrigues-Krause J, Krause M, O'Hagan C, De Vito G, Boreham C, Murphy C, Newsholme P, Colleran G (2012) 'Divergence of intracellular and extracellular HSP72 in type 2 diabetes: does fat matter?'. Cell Stress and Chaperones, 17 (3):293-302.  
Krause MS, McClenaghan NH, Flatt PR, de Bittencourt PI, Murphy C, Newsholme P (2011) 'L-arginine is essential for pancreatic β-cell functional integrity, metabolism and defence from inflammatory challenge'. Journal of Endocrinology, 211 (1):87-97.  
Dr Jens Erik Nielsen
Farrell D, Webb H, Johnston MA, Poulsen TA, O'Meara F, Christensen LLH, Beier L, Borchert TV, Nielsen JE (2012) 'Towards fast determination of protein stability maps: experimental and theoretical analysis of mutants of a Nocardiopsis prasina serine protease'. Biochemistry, 51 (26):5339-5347.  
Bradley J, O'Meara F, Farrell D, Nielsen JE (2012) 'Highly Perturbed pK< sub> a Values in the Unfolded State of Hen Egg White Lysozyme'. Biophysical Journal, 102 (7):1636-1645.  
Johnston MA, Farrell D, Nielsen JE (2012) 'A collaborative environment for developing and validating predictive tools for protein biophysical characteristics'. Journal of Computer-aided Molecular Design, 26 (4):387-396.  
Bjarnadottir U, Nielsen JE (2012) 'Predicting the open conformations of protein kinases using molecular dynamics simulations'. BIOPOLYMERS, 97 (1):65-72.  
Casey J, Kawaguchi R, Morrissey M, Sun H, McGettigan P, Nielsen JE, Conroy J, Regan R, Kenny E, Cormican P, Morris DW, Tormey P, Ni Chroinin M, Kennedy BN, Lynch S, Green A, Ennis S.; (2011) 'First implication of STRA6 mutations in isolated anophthalmia, microphthalmia, and coloboma: A new dimension to the STRA6 phenotype'. Human Mutation, 32 (12):1417-1426.  
Carstensen T, Farrell D, Huang Y, Baker NA, Nielsen JE (2011) 'On the development of protein pKa calculation algorithms'. Proteins: Structure, Function, and Bioinformatics, 79 (12):3287-3298.  
Nielsen JE, Gunner MR, Garcia?Moreno E (2011) 'The pKa Cooperative: A collaborative effort to advance structure?based calculations of pKa values and electrostatic effects in proteins. Proteins: Structure, Function, and Bioinformatics'. Proteins: Structure, Function, and Bioinformatics, 79 (12):3249-3259.  
McIntosh LP, Naito D, Baturin SJ, Okon M, Joshi MD, Nielsen JE (2011) 'Dissecting electrostatic interactions in Bacillus circulans xylanase through NMR-monitored pH titrations'. Journal of biomolecular NMR, 51 (1):5-19.  
Dr John O'Connor
OConnor JJ, Lowry JP (2012) 'A comparison of the effects of the dopamine partial agonists aripiprazole and 3-PPP with quinpirole on stimulated dopamine release in the rat striatum: studies using fast cyclic voltammetry'. European Journal of Pharmacology, 686 :60-65.  
Dr Kevin O'Connor
Narancic T, Kenny S, Lidija D, Vasiljevic B, O'Connor KE, Nikodinovic-Runic J (2012) 'Medium chain length polyhydroxyalkanoate production by newly isolated Pseudomonas sp. TN301 from a wide range of poly- and monoaromatic hydrocarbons'. Journal of Applied Microbiology, 113 :508-520.  
Kenny ST, Nikodinovic Runic J, Kaminsky W, Woods T, Babu RP, and O'Connor KE. (2012) 'Development of a bioprocess to convert PET derived terephthalic acid and biodiesel derived glycerol to medium chain length polyhydroxyalkanoate'. Applied Microbiology and Biotechnology, 95 (3):623-633.  
Narancic T, Nikodinovic J, Kenny S, Vasiljevic B and K O'Connor. (2012) 'Metabolic versatility of Gram-positive microbial isolates from contaminated river sediments'. Journal of Hazardous Materials, 215-216 :243-251.  
Nikodinovic-Runic J, Coulombel L, Francuski D, Sharma ND, Boyd DR, More O'Ferrall R and O'Connor KE (2012) 'The oxidation of alkylaryl sulfides and benzo[b]thiophenes by Escherichia coli cells expressing wild-type and engineered styrene monooxygenase from Pseudomonas putida CA-3'. Applied Microbiology and Biotechnology .  
Boyd DR, Sharma ND, McMurray B, Haughey SA, Allen CCR,Hamilton JTG, McRoberts WC,More O'Ferrall RA, Nikodinovic-Runic J, Coulombel LA and O'Connor KE. (2012) 'Bacterial dioxygenase- and monooxygenase-catalysed sulfoxidation of benzo[b]thiophenes'. Org Biomol Chem, 10 :782-790.  
Dr Jim O'Gara
Stallard CP, McDonnell KA, Onayemi OD, O'Gara JP, Dowling DP (2012) 'Evaluation of protein adsorption on atmospheric plasma deposited coatings exhibiting superhydrophilic to superhydrophobic properties'. Biointerphases, 7 :31-39.  
Pozzi C, Waters EM, Rudkin JK, Schaeffer CR, Lohan AJ, Tong P, Loftus BJ, Pier GB, Fey PD, Massey RC and O'Gara JP (2012) 'Methicillin Resistance Alters the Biofilm Phenotype and Attenuates Virulence in Staphylococcus aureus Device-Associated Infections'. PLoS Pathogens, 8 (4):e-1002626.  
Rudkin JK, Edwards AM, Bowden MG, Brown EL, Pozzi C, Waters E, Chan W, Williams P, O'Gara J P and Massey RC (2012) 'Methicillin Resistance Reduces the Virulence of Healthcare-Associated Methicillin-Resistant Staphylococcus aureus by Interfering With the agr Quorum Sensing System'. Journal of Infectious Diseases, 205 (5):798-806.  
Stevens NT, Greene CM, O'Gara JP, Bayston R, Sattar MT, Farrell M and Humphreys H (2012) 'Ventriculoperitoneal shunt-related infections caused by Staphylococcus epidermidis: pathogenesis and implications for treatment'. British Journal of Neurosurgery, Epub ahead of print .  
Galvin S, Boyle M, Russell R, Coleman D, Creamer E, O'Gara JP, DFitzgerald-Hughes D, Humphreys H (2012) 'A practical evaluation of vaporised hydrogen peroxide, CITROX and ECASOL in the decontamination of an enclosed area'. Journal of Hospital Infection, 80 (1):67-70.  
Professor Ciaran Regan
Scully D, Fedriani R, DeSouza IEJ, Murphy KJ, Regan CM (2012) 'Regional dissociation of paradigm-specific synapse remodelling during memory consolidation in the adult rat dentate gyrus'. Neuroscience, 209 :74-83.  
Freir DB, Fedriani R, Scully D, Smith IM, Selkoe DJ, Walsh DM, Regan CM (2011) 'Aβ oligomers inhibit synapse remodelling necessary for memory consolidation'. Neurobiology of Aging, 32 (12):2211-2218.  
Monopoli MP, Nic Raghnaill M, Loscher JS, O'Sullivan NC, Pangalos MN, Ring RH, Von Schack D, Dunn MJ, Regan CM, Pennington S, Murphy KJ (2011) 'Temporal proteomic profile of memory consolidation in the rat hippocampal dentate gyrus'. Proteomics, 11 (21):4189-4200.  
Dr Helen Reid
Reid HM, Turner EC, Mulvaney EP, Hyland PB, McLean C, Kinsella BT. (2012) 'Interaction of the human prostacyclin receptor and the NHERF4 family member intestinal and kidney enriched PDZ protein (IKEPP)'. Biochima Et Biophysica Acta - Molecular Cell Research, 1823 (10):1998-2012.  
Dr Michael Sharkey
Timpson LM, Liliensiek AK, Alsafadi D, Cassidy J, Sharkey MA, Liddell S,Allers T, Paradisi F (2012) 'A comparison of two novel alcohol dehydrogenase enzymes(ADH1 and ADH2) from the extreme halophile Haloferax volcanii'. Applied Microbiology and Biotechnology .  
Oliveira T, Panjikar S, Carrigan JB, Hamza M, Sharkey MA, Engel PC, Khan AR (2012) 'Crystal structure of NAD+-dependent Peptoniphilus asaccharolyticus glutamate dehydrogenase reveals determinants of cofactor specificity'. Journal of Structural Biology, 177 (2):543-552.  
Timpson LM, Alsafadi D, Mac Donnchadha C, Liddell S, Sharkey MA, Paradisi F. (2012) 'Characterization of alcohol dehydrogenase (ADH12) from Haloarcula marismortui, an extreme halophile from the Dead Sea'. Extremophiles, 16 (1):57-66.  
Sharkey MA, Maher MA, Guyonvarch A, Engel PC (2011) 'Kinetic characterisation of recombinant Corynebacterium glutamicum NAD+-dependent LDH over-expressed in E. coli and its rescue of an lldD- phenotype in C. glutamicum: the issue of reversibility re-examined'. Archives of Microbiology, 193 (10):731-740.  
Professor Dominic Walsh
Mc Donald J, Cairns NJ, Taylor-Reinwald L, Holtzman, Walsh DM (2012) 'The levels of water-soluble and triton-soluble Aβ are increased in Alzheimer's disease brain'. Brain Research, 1450 :138-147.  
Bieschke J, Herbst M, Wiglenda T, Friedrich RP, Boeddrich A, Schiele F1, Kleckers D, Lopez de Vega JM, Gruning B, Wang Q, Schmidt MR, Lurz R, Roger Anwyl, Schnoegl S, Fandrich M, Frank RF, Reif B, Gunther S, Walsh DM and Wanker EE (2011) 'An orcein-related small molecule promotes the conversion of toxic oligomers to non-toxic, beta-sheet-rich amyloid fibrils'. Nature Chemical Biology, 8 :93-101.  
O'Nuallain B, Klyubin I, McDonald JM, Barry A, Dykoski RK, Cleary JP, Gebbink MFBG, Rowan MJ and Walsh DM (2011) 'A Monoclonal Antibody Against Synthetic A-beta Dimers Assemblies Neutralizes Brain-Derived Synaptic Plasticity-Disrupting Abeta'. Journal of neurochemistry, 119 :189-201.  
Dr Tadhg ?Cr?n
O Croinin T and Backert S. (2012) 'Host Epithelial Cell Invasion by Campylobacter jejuni: trigger or zipper mechanism?'. Frontiers in Cellular and Infection Microbiology, 2 (25).  

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Conference Publications
Dr Orina Belton
McCarthy C, Duffy M, Mooney D, James W, Fitzgerald DJ, Griffin MD, Belton O, (2012) Il-10 Regulates the Immunoregulatory Response in the Regression of Atherosclerosis Circulation Research,  
McCarthy C, Mooney D, de Gaetano M, James W, Fitzgerald DJ, Belton O (2012) Activation of the Nuclear Receptor Coactivator PGC-1{alpha} Mediates an Atheroprotective Effect Circulation Research,  
Dr John Crean
Andrews D, Browne J, O'Donovan H, Faherty N, Oliver N, Wallace D, O'Brien C and Crean J. (2012) Integrated signalling between CTGF and TGFβ2 leads to divergent activation of canonical and non-canonical pathways controlling EMT in ARPE-19 cells: Implications for the pathogenesis of proliferative vitreoretinopathy ARVO,  
Faherty N, Curran SP, O'Donovan H, Martin F, Godson C, Brazil DP, and Crean J. (2011) CCN2/CTGF increases expression of miR-302 microRNAs, which target the TGFβ type II receptor with implications for nephropathic cell phenotypes American Society of Nephrology,  
Dr Tara McMorrow
Cassidy H, Slyne J, Johnston O, Brennan L, O'Riordan A, Conlon P, Ryan MP, McMorrow T (2011) Metabolomic Profiling Of Chronic Allograft Nephropathy (CAN) Resulting From Immunosuppressant Therapies In Post Renal Transplantation Patients HUPO 10th World Congress, Geneva, Switzerland,  
Dr John O'Connor
Mukandala GD, O'Connor, JJ (2012) TNF-α synthesis inhibition post hypoxia impairs long-term potentiation in the dentate gyrus in vitro FENS Barcelona,  
Corcoran AE, Harney SC, O'Connor JJ (2012) Prolyl hydroxylase inhibition impairs long-term potentiation in the rat hippocampus FENS Barcelona,  
Wall AM, O'Connor JJ (2012) Tumour necrosis factor alpha does not impair long term potentiation following an acute hypoxic insult FENS Barcelona,  
Fanning RA, McMorrow JP, Campion DP, Carey MF, O'Connor JJ (2012) Opioid mediated activity in human term non-laboring myometrium Royal Academy of Medicine in Ireland, Biomedical Sciences Section, Galway,  
Fanning RA, Duffy N, Leonard M, Ahmed JJ, O'Connor JJ (2012) The oxytocic effect of ergometrine on human myomterium in vitro does not involve 5-HT2 receptor activation Royal Academy of Medicine in Ireland, Biomedical Sciences Section,  
Fanning RA, Duffy N, Leonard M, Ahmed JJ, O'Connor JJ (2012) An investigation into the effects of ergometrine on human myomterium in vitro International Society of Obstetric Anaesthesia,  
O'Connor JJ, Dalton M, Cavanni P, Large CH, Lowry JP (2011) A comparison of the effects of the dopamine partial agonists aripiprazole and (-)- 3-PPP with quinpirole on stimulated dopamine release in the rat striatum: studies using fast cyclic voltammetry in vitro Neuroscience Ireland Annual meeting NUI Maynooth, Irish Journal of Medical Science,  
Corcoran AE, O'Connor JJ (2011) Dimethyloxalyl Glycine Decreases Synaptic Signalling and Impairs Long Term Potentiation in the Rat Hippocampus Neuroscience Ireland Annual meeting NUI Maynooth, Irish Journal of Medical Science,  
Wall AM, O'Connor JJ (2011) Acute hypoxia impairs the recovery of synaptic transmission in the rat dentate gyrus and potentiates long-term potentiation in the presence of tumour necrosis factor-alpha and picrotoxin Neuroscience Ireland Annual meeting NUI Maynooth, Irish Journal of Medical Science,  
Corcoran AE, O'Connor JJ (2011) Acute effects of hypoxia and prolyl hydroxylase inhibition on synaptic plasticity in the rat hippocampus Soc Neuroscience,  
Dr Kevin O'Connor
Guzik M, Duane G, Kenny S, Casey E, O'Connor K (2011) Mathematical modelling of the bioprocess for PHA production European Congress of Applied Biotechnology, Berlin,  
Dr Tadhg ?Cr?n
Shortt C, Scanlan E, Bourke, B and O Croinin T (2012) Alteration of DNA Topology leads to changes in Flagella gene expression in Campylobacter jejuni American Society of Microbiology, General Meeting,  
Scanlan E, Shortt C, Bourke B, and O Croinin T (2012) DNA Supercoiling in Campylobacter jejuni: A Potential Trigger for Invasion American Society of Microbiology, General Meeting,  
Shortt C, Scanlan E, Bourke B and O Croinin T (2012) DNA topology influences motility and chemotaxis in the enteric pathogen, Campylobacter jejuni SGM General Meeting,  
Scanlan E, Shortt C, Bourke B and O Croinin T (2012) A link between DNA topology and the invasive phenotype of Campylobacter jejuni SGM General Meeting,  

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