2013

Wiejak, J., Tsimbouri, P.M., Herzyk, P., Dalby, M.J., Hamilton, G., and Yarwood, S.J. (2013) Genomic analysis of the role of transcription factor C/EBPδ in the regulation of cell behaviour on nanometric grooves. Biomaterials, 34 (8). pp. 1967-1979. ISSN 0142-9612 (doi:10.1016/j.biomaterials.2012.11.036)

James, A.B., Syed, N. H., Bordage, S., Marshall, J., Nimmo, G.A., Jenkins, G.I., Herzyk, P., Brown, J. W. S., and Nimmo, H.G. (2013) Alternative splicing mediates responses of the Arabidopsis circadian clock to temperature changes. Plant Cell . ISSN 1040-4651 (In Press)

Robinson, S.W., Herzyk, P., Dow, J.A.T., and Leader, D.P. (2013) FlyAtlas: database of gene expression in the tissues of drosophila melanogaster. Nucleic Acids Research, 41 (D1). D744-D750. ISSN 0305-1048 (doi:10.1093/nar/gks1141)

2012

Marasco, V., Robinson, J., Herzyk, P., and Spencer, K. (2012) Pre- and post-natal stress in context: effects on the stress physiology in a precocial bird. Journal of Experimental Biology, 215 (22). pp. 3955-3964. ISSN 0022-0949 (doi:10.1242/jeb.071423)

McNamara, L.E., Burchmore, R.J.S., Riehle, M.O., Herzyk, P., Biggs, M.J.P., Wilkinson, C.D.W., Curtis, A.S.G., and Dalby, M.J. (2012) The role of microtopography in cellular mechanotransduction. Biomaterials, 33 (10). pp. 2835-2847. ISSN 0142-9612 (doi:10.1016/j.biomaterials.2011.11.047)

Chintapalli, V., Terhzaz, S., Wang, J., Al Bratty, M., Watson, D.G., Herzyk, P., Davies, S.A., and Dow, J.A.T. (2012) Functional correlates of positional and gender-specific renal asymmetry in Drosophila. PLoS ONE, 7 (4). e32577. ISSN 1932-6203 (doi:10.1371/journal.pone.0032577)

E-komon, T., Burchmore, R., Herzyk, P., and Davies, R. (2012) Predicting the outer membrane proteome of Pasteurella multocida based on consensus prediction enhanced by results integration and manual confirmation. BMC Bioinformatics, 13 (1). p. 63. ISSN 1471-2105 (doi:10.1186/1471-2105-13-63)

James, A.B., Syed, N.H., Bordage, S., Marshall, J., Nimmo, G.A., Jenkins, G.I., Herzyk, P., Brown, J.W.S., and Nimmo, H.G. (2012) Alternative splicing mediates responses of the Arabidopsis circadian clock to temperature changes. Plant Cell, 24 (3). pp. 961-981. ISSN 1040-4651 (doi:10.1105/tpc.111.093948)

Podar, D., Scherer, J., Noordally, Z., Herzyk, P., Nies, D., and Sanders, D. (2012) Metal selectivity determinants in a family of transition metal transporters. Journal of Biological Chemistry, 287 (5). pp. 3185-3196. ISSN 0021-9258 (doi:10.1074/jbc.M111.305649)

Reimer, M. M. et al. (2012) Rapid Disruption of Axon-Glial Integrity in Response to Mild Cerebral Hypoperfusion. Journal of Neuroscience, 31 (49). pp. 18185-18194. ISSN 0270-6474

2011

Wright, C.F., Morelli, M.J., Thebaud, G., Knowles, N.J., Herzyk, P., Paton, D.J., Haydon, D.T., and King, D.P. (2011) Beyond the consensus: dissecting within-host viral population diversity of foot-and-mouth disease virus using next-generation genome sequencing. Journal of Virology, 85 (5). pp. 2266-2275. ISSN 0022-538X (doi:10.1128/JVI.01396-10)

Gatherer, D. et al. (2011) High-resolution human cytomegalovirus transcriptome. Proceedings of the National Academy of Sciences of the United States of America, 108 (49). pp. 19755-19760. ISSN 0027-8424 (doi:10.1073/pnas.1115861108)

Rogers, M.B. et al. (2011) Chromosome and gene copy number variation allow major structural change between species and strains of Leishmania. Genome Research, 21 (12). pp. 2129-2142. ISSN 1088-9051 (doi:10.1101/gr.122945.111)

Wang, D. et al. (2011) Identification of bacterial target proteins for the salicylidene acylhydrazide class of virulence blocking compounds. Journal of Biological Chemistry, 286 (34). pp. 29922-29931. ISSN 0021-9258 (doi:10.1074/jbc.M111.233858)

2009

Gow, J.W., Hagan, S., Herzyk, P., Cannon, C., Behan, P.O., and Chaudhuri, A. (2009) A gene signature for post-infectious chronic fatigue syndrome. BMC Medical Genomics, 2 (38). (doi:10.1186/1755-8794-2-38)

2008

James, A.B., Monreal, J.A., Nimmo, G.A., Kelly, C.L., Herzyk, P., Jenkins, G.I., and Nimmo, H.G. (2008) The circadian clock in Arabidopsis roots is a simplified slave version of the clock in shoots. Science, 322 (5909). pp. 1832-1835. ISSN 0036-8075 (doi:10.1126/science.1161403)

Bridges, D.J., Pitt, A.R., Hanrahan, O., Brennan, K., Voorheis, H.P., Herzyk, P., De Koning, H.P., and Burchmore, R.J.S. (2008) Characterisation of the plasma membrane subproteome of bloodstream form Trypanosoma brucei. Proteomics, 8 (1). pp. 83-99. ISSN 1615-9853 (doi:10.1002/pmic.200700607)

Bridges, D.J., Pitt, A.R., Hanrahan, O., Brennan, K., Voorheis, H.P., Herzyk, P., de Koning, H.P., and Burchmore, R.J.S. (2008) Characterisation of the plasma membrane subproteome of bloodstream form Trypanosoma brucei. Proteomics, 8 (1). pp. 83-99. ISSN 1615-9853 (doi:10.1002/pmic.200700607)

Wotton, S., Terry, A., Kilbey, A., Jenkins, A., Herzyk, P., Cameron, E., and Neil, J.C. (2008) Gene array analysis reveals a common Runx transcriptional programme controlling cell adhesion and survival. Oncogene, 27 (44). pp. 5856-5866. ISSN 0950-9232 (doi:10.1038/onc.2008.195)

2007

Nebel, J.C., Herzyk, P., and Gilbert, D.R. (2007) Automatic generation of 3D motifs for classification of protein binding sites. BMC Bioinformatics, 8 (321). ISSN 1471-2105 (doi:10.1186/1471-2105-8-321)

Dalby, M.J., Gadegaard, N., Herzyk, P., Agheli, H., Sutherland, D.S., and Wilkinson, C.D.W. (2007) Group analysis of regulation of fibroblast genome on low-adhesion nanostructures. Biomaterials, 28 . pp. 1761-1769. (doi:10.1016/j.biomaterials.2006.11.049)

Dalby, M.J., Gadegaard, N., Tare, R., Andar, A., Riehle, M.O., Herzyk, P., Wilkinson, C.D.W., and Oreffo, R.O.C. (2007) The control of human mesenchymal cell differentiation using nanoscale symmetry and disorder. Nature Materials, 6 (12). pp. 997-1003. ISSN 1476-1122 (doi:10.1038/nmat2013)

Herzyk, P (2007) Nanomechanotransduction and interphase nuclear organization influence on genomic control. Journal of Cellular Biochemistry, 102 (5). pp. 1234-1244. (doi:10.1002/jcb.21354)

Richardson, A, Boscari, A, Schreiber, L, Kerstiens, G, Jarvis, M, Herzyk, P, and Fricke, W (2007) Cloning and expression analysis of candidate genes involved in wax deposition along the growing barley (Hordeum vulgare) leaf. Planta, 226 . pp. 1459-1473. (doi:10.1007/s00425-007-0585-0)

2006

Mackley, J., Ando, J., Herzyk, P., and Winder, S.J. (2006) Phenotypic responses to mechanical stress in fibroblasts from tendon, cornea and skin. Biochemical Journal, 396 (Pt. 2). pp. 307-316. ISSN 0264-6021

Bolger, G.B. et al. (2006) Scanning peptide array analysis identify overlapping binding sites for the signaling scaffold proteins, beta-arestin and RACK1 in the cAMP-specific phosphodiesterase, PDE4D5. Biochemical Journal, 398 (1). pp. 23-36. ISSN 0264-6021 (doi:10.1042/BJ20060423)

Bolger, GB et al. (2006) Scanning peptide array analyses identify overlapping binding sites for the signalling scaffold proteins, beta-arrestin and RACK1, in cAMP-specific phosphodiesterase PDE4D5. Biochemical Journal, 398 . pp. 23-36. ISSN 0264-6021 (doi:10.1042/BJ20060423)

Hunter, KD et al. (2006) Divergent routes to oral cancer. Cancer Research, 66 . pp. 7405-7413. (doi:10.1158/0008-5472.CAN-06-0186)

2005

Breitling, R, and Herzyk, P (2005) Biological master games: Using biologists' reasoning to guide algorithm development for integrated functional genomics. Omics-a Journal of Integrative Biology, 9 . pp. 225-232.

Brown, B.A., Cloix, C., Jiang, G.H., Kaiserli, E., Herzyk, P., Kliebenstein, D.J., and Jenkins, G.I. (2005) A UV-B-specific signaling component orchestrates plant UV protection. Proceedings of the National Academy of Sciences of the United States of America, 102 . pp. 18225-18230. (doi:10.1073/pnas.0507187102)

Herzyk, P (2005) Rank-based statistics as a non-parametric alternative of the t-statistic for the analysis of biological microarray data. Journal of Bioinformatics and Computational Biology, 3 (5). pp. 1171-1189. (doi:10.1142/S0219720005001442)

MacCallum, A., Herzyk, P., Young, C., Ketley, J. M., and Everest, P. (2005) Campylobacter jejuni interaction with enterocytes - using host gene expressionanalysis to unravel potential disease mechanisms. In: Ketley, J. M. and konkel, M. (eds.) In Campylobacter Cellular and Molecular Biology. Horizon Press, pp. 435-443.

2004

Breitling, R, Amtmann, A, and Herzyk, P (2004) Graph-based iterative Group Analysis enhances microarray interpretation. BMC Bioinformatics, 5 . ISSN 1471-2105 (doi:10.1186/1471-2105-5-100)

Breitling, R, Armengaud, P, Amtmann, A, and Herzyk, P (2004) Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments. Febs Letters, 573 . pp. 83-92. (doi:10.1016/j.febslet.2004.07.055)

Wang, J, Kean, L, Yang, JL, Allan, AK, Davies, SA, Herzyk, P, and Dow, JAT (2004) Function-informed transcriptome analysis of Drosophila renal tubule. Genome Biology, 5 .

2003

Maathuis, FJM et al. (2003) Transcriptome analysis of root transporters reveals participation of multiple gene families in the response to cation stress. Plant Journal, 35 . pp. 675-692. (doi:10.1046/j.1365-313X.2003.01839.x)

2001

Herzyk, P (2001) The dimerization interface of the metastasis-associated protein S100A4 (Mts1) - In vivo and in vitro studies. Journal of Biological Chemistry, 276 (26). pp. 24212-24222. ISSN 0021-9258 (doi:10.1074/jbc.M009477200)