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Publications

Recent publications Web of Science h-index: 13

  • Lucas ES, Dyer NP, Murakami K, Lee YH, Chan YW, Grimaldi G, Muter J, Brighton PJ, Moore JD, Patel G, Chan JK, Takeda S, Lam EW, Quenby S, Ott S, Brosens JJ. (2015) Loss of Endometrial Plasticity in Recurrent Pregnancy Loss. Stem Cells. 2015 Sep 29. doi: 10.1002/stem.2222. [Epub ahead of print]
  • Eduati F, Mangravite LM, Wang T, Tang H, Bare JC, Huang R, Norman T, Kellen M, Menden MP, Yang J, Zhan X, Zhong R, Xiao G, Xia M, Abdo N, Kosyk O, NIEHS-NCATS-UNC DREAM Toxicogenetics Collaboration. (2015) Prediction of human population responses to toxic compounds by a collaborative competition. Nature Biotechnology doi:10.1038/nbt.3299.
  • Walley PW, Moore JD. (2015) Biotechnology and Genomics: Exploiting the Potential of Crop Wild Relatives. In: Redden R, Yadav SS, Maxted N, Dulloo ME, Guarino L, Smith P. (eds.) Crop Wild Relatives and Climate Change, Wiley. Pp. 212-223.
  • Adaikalakoteswari A, Finer S, Voyias PD, McCarthy CM, Vatish M, Moore J, Smart-Halajko M, Bawazeer N, Al-Daghri NM, McTernan PG, Kumar S, Hitman GA, Saravanan P, Tripathi G. (2015) Vitamin B12 insufficiency induces cholesterol biosynthesis by limiting s-adenosylmethionine and modulating the methylation of SREBF1 and LDLR genes. Clinical Epigenetics 7:14.
  • Muter J, Lucas ES, Chan Y-W, Brighton PJ, Moore JD, Lacey L, Quenby S, Lam EW-F, Brosens JJ. (2015) The clock protein period 2 synchronizes mitotic expansion and decidual transformation of human endometrial stromal cells. The FASEB Journal doi: 10.1096/fj.14-267195.
  • Ingham VA, Jones CM, Pignatelli P, Balabanidou V, Vontas J, Wagstaff SC, Moore JD, Ranson H. (2014) Dissecting the organ specificity of insecticide resistance candidate genes in Anopheles gambiae: known and novel candidate genes. BMC Genomics 2014, 15:1018.
  • Murakami K, Lee YH, Lucas ES, Chan Y-W, Durairaj RP, Takeda S, Moore JD, Tan BK, Quenby S, Chan JKY, Gargett CE, Brosens JJ. (2014) Decidualization induces a secretome switch in perivascular niche cells of the human endometrium. Endocrinology 155:11.
  • Wood GR, Ryabov EV, Fannon JM, Moore JD, Evans DJ, Burroughs N. (2014) MosaicSolver: a tool for determining recombinants of viral genomes from pileup data. Nucleic Acids Res. 42:16.
  • Ryabov EV, Wood GR, Fannon JM, Moore JD, Bull JC, Chandler D, Mead A, Burroughs N and Evans DJ. (2014) A Virulent Strain of Deformed Wing Virus (DWV) of Honeybees (Apis mellifera) prevails after Varroa destructor-mediated, or In Vitro, transmission. PLOS Pathogens. DOI: 10.1371/journal.ppat.1004230.
  • Parkin IAP, Koh C, Tang H, Robinson SJ, Kagale S, Clarke WE, Town CD, Nixon J, Krishnakumar V, Bidwell SL, Denoeud F, Belcram H, Links MG, Just J, Clarke C, Bender T, Huebert T, Mason AS, Pires CJ, Barker G, Moore J, Walley PG, Manoli S, Batley J, Edwards D, Nelson MN, Wang X, Paterson AH, King G, Bancroft I, Chalhoub B and Sharpe AG. (2014) Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea. Genome Biology 15:R77.
  • Bari MF, Brown H, Nicholson AG, Kerr KM, Gosney JR, Wallace WA, Soomro I, Muller S, Peat D, Moore JD, Ward LA, Freidin MB, Lim E, Vatish M, Snead DR. (2014) BAI3, CDX2 and VIL1: a panel of three antibodies to distinguish small cell from large cell neuroendocrine lung carcinomas. Histopathology. 2014 Mar;64(4):547-56. doi: 10.1111/his.12278. Epub 2013 Nov 25.
  • Brosens JJ, Salker MS, Teklenburg G, Nautiyal J, Salter S, Lucas ES, Steel JH, Christian M, Chan YW, Boomsma CM, Moore JD, Hartshorne GM, Sućurović S, Mulac-Jericevic B, Heijnen CJ, Quenby S, Groot Koerkamp MJ, Holstege FC, Shmygol A, Macklon NS. (2014) Uterine selection of human embryos at implantation. Sci Rep. 2014 Feb 6;4:3894. doi: 10.1038/srep03894.
  • Chan Y.-W., van den Berg H.A., Moore J.D., Quenby S., Blanks A.M. (2014) Assessment of Myometrial Transcriptome Changes Associated with Spontaneous Human Labour by High Throughput RNA-seq. Exp Physiol. 2014 Jan 10. [Epub ahead of print].
  • Nellist, C.F., Qian, W., Jenner, C.E., Moore, J.D., Zhang, S., Wang, X., Briggs, W.H., Barker, G.C., Sun, R. and Walsh, J.A. (2014) Multiple copies of eukaryotic translation initiation factors in Brassica rapa facilitate redundancy, enabling diversification through variation in splicing and broad-spectrum virus resistance. The Plant Journal 77 (2), 261-268.
  • Leonelli, S., Smirnoff, N., Moore, J., Cook, C. and Bastow, R. (2013) Making open data work for plant scientists. Journal of Experimental Botany 09/2013.
  • Brown, P., Baxter, L., Hickman, R., Beynon, J., Moore, J.D. and Ott, S. (2013) MEME-LaB: motif analysis in clusters. Bioinformatics 29(13) 1696-1697.
  • Hickman, R., Hill, C., Penfold, C.A., Breeze, E., Bowden, L., Moore, J.D., Zhang, P., Jackson, A., Cooke, E., Bewicke-Copley, F., Mead, A., Beynon, J., Wild, D.L., Denby, K.J., Ott, S. and Buchanan-Wollaston, V. (2013). A Local Regulatory Network Around Three NAC Transcription Factors in Stress Responses and Senescence in Arabidopsis leaves. The Plant Journal, 04/2013.
  • Traka, M. H., Saha, S., Huseby, S., Kopriva, S., Walley, P. G., Barker, G., Moore, J., Mero, G., van den Bosch, F., Constant, H., Kelly, L., Schepers, H., Boddupalli, S., and Mithen, R. F. (2013). Genetic regulation of glucoraphanin accumulation in Beneforté® broccoli. New Phytologist, doi: 10.1111/nph.12232.
  • Baxter, L., Jironkin, A., Hickman, R., Moore, J., Barrington, C., Krusche, P., Dyer, N.P., Buchanan-Wollaston, V., Tiskin, A., Beynon, J., Denby, K. and Ott, S. (2012) Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants. The Plant Cell, 24(10): 3949-3965.
  • Kitchen, J.L., Moore, J.D., Palmer, S.A. and Allaby, R.G. (2012) MCMC-ODPR: Primer design optimization using Markov Chain Monte Carlo sampling. BMC Bioinformatics, 13:287
  • Windram, O., Madhou, P., McHattie, S., Hill, C., Hickman, R., Cooke, E., Jenkins, D.J., Penfold, C.A., Baxter, L., Breeze, E., Kiddle, S.J., Rhodes, J., Atwell, S., Klieberstein, D.J., Kim Y-S., Stegle, O., Borgwardt, K., Zhang, C., Tabrett, A., Legaie, R., Moore, J., Finkenstadt, B., Wild, D.L., Mead, A., Rand, D., Beynon, J., Ott, S, Buchanan-Wollaston, V. and Denby, K. (2012) Arabidopsis defense against Botrytis cinerea: chronology and regulation deciphered by high-resolution temporal transcriptomic analysis. The Plant Cell, 24(9): 3530-3557
  • Palmer, S.A., Clapham, A.J., Rose, P., Freitas, F.O., Owen, B.D., Beresford-Jones, D., Moore, J.D., Kitchen, J.L. and Allaby, R.G. (2012) Archaeogenomic evidence of punctuated genome evolution in Gossypium. Molecular Biology and Evolution 29 (8). [citations 6]
  • Thomas, L., Hodgson, D.A., Wentzel, A., Nieselt, K., Ellingsen, T.E., Moore. J., Morrissey, E.R., Legaie, R; The STREAM Consortium, Wohleben, W., Rodriguez-Garcia, A., Martin, J.F., Burroughs, N.J., Wellington, E.M., Smith, M.C. (2012) Metabolic switches and adaptations deduced from the proteomes of Streptomyces coelicolor wild type and phoP mutant grown in batch culture, Mol. Cell Proteomics, 11(2): M111.013797. [citations 5]
  • Mukhtar, M.S., Carvunis, A-R., Dreze, M., Epple, P., Steinbrenner, J., Moore, J., Tasan, M., Galli, M., Hao, T., Nishimura, M.T., Pevzner, S.J., Donovan, S.E., Ghamsari, L., Santhanam, B., Romero, V., Poulin, M.M., Gebreab, F., Gutierrez, B.J., Tam, S., Monachello, D., Boxem, M., Harbort, C.J., McDonald, N., Gai, L., Chen, H., He, Y., European Union Effectoromics Consortium, Vandenhaute, J., Roth, F.P., Hill, D.E., Ecker, J.R., Vidal, M., Beynon, J., Braun, P., Dangl, J.L. (2011) Independently evolved virulence effectors converge onto hubs in a plant immune system network. Science 333(6042): 596-601. [citations 66]
  • Arabidopsis Interactome Mapping Consortium (2011) Evidence for network evolution in an Arabidopsis interactome map. Science 333(6042): 601-607. [citations 82]
  • Breeze, E., Harrison, E., McHattie, S., Hughes, L., Hickman, R., Hill, C., Kiddle, S., Kim, Y-S., Penfold, C.A., Jenkins, D., Zhang, C., Morris, K., Jenner, C., Jackson, S., Thomas, B., Tabrett, A., Legaie, R., Moore, J.D., Wild, D.L., Ott, S., Rand, D., Beynon, J., Denby, K., Mead, A. and Buchanan-Wollaston, V. (2011) High-Resolution temporal profiling of transcripts during Arabidopsis leaf senescence reveals a distinct chronology of processes and regulation. The Plant Cell 23(3): 873-894. [citations 43]
  • Moore, J., Jironkin, A., Chandler, D., Burroughs, N., Evans, D.J. and Ryabov, E.V. (2011) Recombinants between Deformed wing virus and Varroa destructor virus-1 may prevail in Varroa destructor-infested honeybee colonies. Journal of General Virology 92, 156-161. [citations 16]
  • Hassani-Pak, K., Legaie, R., Canevet, C., van den Berg, H.A., Moore, J.D. and Rawlings, C. (2010) Enhancing data integration with text analysis to find proteins implicated in plant stress response. Journal of Integrative Bioinformatics 7:3. [citations 2]
  • Alam, M.T., Merlo, M.E., The STREAM Consortium, Hodgson, D.A., Wellington, E.M.H., Takano, E., Breitling, R. (2010) Metabolic modeling and analysis of the metabolic switch in Streptomyces coelicolor BMC Genomics 11:202. [citations 8]
  • Nieselt, K., Battke, F., Herbig, A., Bruheim, P., Wentzel, A., Jakobsen, O.M., Sletta, H., Alam, M.T., Merlo, M.E., Moore, J., Omara,W., Morrissey, E.R., Juarez-Hermosillo, M., Rodríguez-García, A., Nentwich, M., Thomas, L., Legaie, R., Gaze, W.H., Challis, G.L., Jansen, R.C., Dijkhuizen, L., Rand, D.A., Wild, D.L., Bonin, M., Reuther, J., Wohlleben, W., Smith, M.C.M., Burroughs, N.J., Martín, J.F., Hodgson, D.A., Takano, E., Breitling, R., Ellingsen, T.E., Elizabeth M. H. Wellington, E.M.H. (2010) The dynamic architecture of the metabolic switch in Streptomyces coelicolor. BMC Genomics 11:10. Highly Accessed. [citations 48]
  • Palmer, S.A., Moore, J.D., Clapham, A.J., Rose, P. and Allaby, R.G. (2009) Archaeogenetic Evidence of Ancient Nubian Barley Evolution from Six to Two-Row Indicates Local Adaptation. PLoS ONE 4(7): e6301. [citations 10]
  • Alix, K., Joets, J., Ryder, C.D., Moore, J., Barker, G.C., Bailey, J.P., King, G.J. and Heslop-Harrison, J.S. (2008) The CACTA transposon Bot1 played a major role in Brassica genome divergence and gene proliferation. The Plant Journal 56: 1030-1044. [citations 31]
  • Moore, J.D., Kell, S.P., Iriondo J, Ford-Lloyd, B. and Maxted, N. (2008) CWRML: representing crop wild relative conservation and use data in XML. BMC Bioinformatics 9:116. [citations 7]
  • Moore, J.D. and Allaby, R.G. (2008) TreeMos: a high-throughput phylogenomic approach to find and visualise phylogenetic mosaicism. Bioinformatics 24(5):717-718.
  • Kell, S.P., Moore, J.D., Iriondo, J.M., Scholten, M.A., Ford-Lloyd, B.V. and Maxted, N. (2008) CWRIS: an information management system to aid crop wild relative conservation and sustainable use. In: Maxted, N., Ford-Lloyd, B.V., Kell, S.P., Iriondo, J., Dulloo, E. and Turok, J. (eds.) Crop Wild Relative Conservation and Use. CABI Publishing, Wallingford. Pp. 469-489. [citations 6]
  • Alix, K., Ryder, C.D., Moore, J., King, G.J., and Heslop-Harrison, P.J.S. (2005). The Genomic Organization of Retrotransposons in Brassica oleracea. Plant Molecular Biology 59:6 839-851. [citations 19]
  • Kell, S.P., and Moore, J. (2005). The PGR Forum crop wild relative information system (CWRIS): an introduction. Crop Wild Relative 4: 4-5.
  • Moore, J.D. and Kell, S.P. (eds.) (2005). PGR Forum CD ROM. University of Birmingham, UK.

Conference presentations

  • Ryabov, E.V., Wood, G.R., Fannon, J.M., Moore, J.D., Bull, J.C., Chandler, D., Mead, A., Burroughs, N. and Evans, D.J. (2013). Effect of pathogenic strains of Deformed wing virus and the mite Varroa destructor on global gene expression in the honeybee (Apis mellifera). Oral presentation. EMBO-ESF Research Conferences Integrated Insect Immunology: From Basic Biology To Environmental Applications 23-28 September 2013 Polonia Castle in Pultusk, Poland.
  • Moore, J.D. (2013). RNA-Seq analysis of diverse vegetable Brassicas and wild relatives. Oral presentation. UK Genome Science 2013. Nottingham, UK.
  • Moore, J.D. (2013). Brassica C genome transcript diversity. Oral presentation. UK Brassica Research Community 2013. Rothamsted, UK.
  • Isom, G., Poon, V., Corre, C., Hodgson, D.A. and Moore, J.D. (2013). ScoCyc: a curated genome-scale model of Streptomyces coelicolor A3(2) metabolism. Poster presentation. Chemistry and Biology of Natural Products 2013. Warwick, UK.
  • Moore, J.D., Walley, P.G., Edger, P., Arias, T., Mayfield, D.R.F., Teakle, G.R., Allaby, R.G., Pires, J.C. and Barker, G. (2013). Insights Into Evolutionary Relationships Among Brassica C Genome Wild Species and Crops. Oral presentation. Plant and Animal Genome XXI. San Diego, USA.
  • Moore, J.D. (2012). From bench to web via spreadsheets: practical data sharing in research groups. Invited oral presentation. Making data accessible to all conference, Exeter, UK.
  • Bari, M. F.; Nicholson, A. G.; Kerr, K. M.; et al. (2012). Biomarkers for the classification of highly malignant neuroendocrine lung carcinoma. Histopathology 61: 202.
  • Boddington, C., Jenkins, D. and Moore, J.D. (2012) The Arabidopsis IDEAs database: integrating and visualising Interactions, Domains, Experiments and Annotations. Oral and poster presentations. UK Plant Systems Biology 2012, Norwich, UK.
  • Teakle, G., Walley, P., Moore, J., Astley, D., King, G., Buchanan-Wollaston, V., Hand, P., Pink, D. and Barker, G. (2012). Genetic diversity in C genome diploid Brassicas. Poster presentation. Plant and Animal Genome XX.
  • Adaikalakoteswari, A., Moore, J., McTernan, P.G., Kumar, S., Saravanan, P., Tripathi, G. (2011). Low B12 and high folate: a novel regulator of cholesterol biosynthesis in human adipocytes. Poster presentation. European Association for the Study of Diabetes 2011, Lisbon, Portugal.
  • Moore, J. (2011). Palaeointeractomics. Poster presentation. An inter-disciplinary forum on the subject of 'Time', University of Warwick, UK.
  • Hill, C., Jenkins, D., Moore, J.D. and Penfold, C. (2011). Transcriptional networks in plant stress responses. Oral presentation. UK Plant Systems Biology Workshop 2011, CSBE Edinburgh, UK.
  • Bari, M.F., Moore, J., Zehnder, D., Bird, H., and Snead, D. (2010). Analysis of gene expression array data to identify biomarkers specific to small cell lung cancer. Poster Presentation. AACR-IASLC Joint Conference on Molecular Origins of Lung Cancer 2010, Coronado, USA.
  • Bari, M.F., Moore, J., Zehnder, D., Bird, H., and Snead, D. (2010). Molecular Characteristics of Small Cell Lung Carcinoma. Pathological Society of Great Britain and Ireland Winter Meeting, London, UK.
  • Moore, J.D. and Allaby R.G. (2008). TreeMos: a high-throughput phylogenomic approach to identifying and visualising phylogenetic mosaicism. Poster Presentation. Genetics 2008, Berlin, Germany.
  • Alix, K., Ryder, C.D., Moore, J., King, G.J. and Heslop-Harrison, P.J.S. (2006). The Diversity And Organization Of Retrotransposons In Brassica: Understanding Their Phylogeny And Evolution. Poster presentation. In: Plant and Animal Genome XIV Conference Abstracts.
  • Moore, J.D., King, G.J., Lynn, J. (2006). Data integration for Brassica comparative genomics. Oral presentation. 2006 UK Brassica Research Community Annual Meeting, John Innes Centre, UK.
  • Barker, G., Ryder, C., Moore, J., Weaver, G., Naylor, R., Edwards, R., Sharpe, A., Durkin, J., Lydiate, D., and King, G. (2005). EST Sequencing of Brassica oleracea. Poster presentation. In: Plant and Animal Genome XIII Conference Abstracts.
  • Kell, S.P., Moore, J., Iriondo, J.M., Scholten, M.A. and Maxted, N. (2005). Creation and development of the PGR Forum CWR Information System (CWRIS). Oral presentation. In: First International Conference on Crop Wild Relative Conservation and Use: Book of abstracts (Kell, S., Scholten, M. eds.).
  • Barker, G., Ryder, C., Moore, J., Naylor, R., Edwards, R., Sharpe, A., Durkin, J., Lydiate, D., and King, G. (2004). A public EST sequencing programme for Brassica oleracea. Poster presentation. Brassica 2004, Daejeon, Korea.