Published Work
PAPERS
- Sun J, Garibaldi JM, Krasnogor N, Zhang Q (2012) An Intelligent Multi-Restart Memetic Algorithm for Unconstrained Global Optimization. Evolutionary Computation, MIT Press. DOI: 10.1162/EVCO_a_00068 Full-text @ Publishers websiteVirtual Root
- Andrew P French, Michael H Wilson, Kim Kenobi, Daniela Dietrich, Ute Voss, Susana Ubeda-Tomas, Tony P Pridmore, Darren M Wells (2012) Identifying biological landmarks using a novel cell measuring image analysis tool: Cell-o-Tape. Accepted for publication in Plant Methods Virtual Root
- Géraldine Brunoud, Darren M. Wells*, Marina Oliva*, Antoine Larrieu*, Vincent Mirabet, Amy H. Burrow, Tom Beeckman, Stefan Kepinski, Jan Traas, Malcolm J. Bennett, Teva Vernoux (2012) A novel sensor to map auxin response and distribution at high spatio-temporal resolution. Nature 482, 103–106 [* these authors contributed equally]DOI: 10.1038/nature10791 Full-text @ Publishers websiteVirtual Root
- Leah R Band*, Darren M. Wells*, Antoine Larrieu*, Jianyong Sun*, Alistair M. Middleton*, Andrew P. French, Géraldine Brunoud, Ethel Mendocilla Sato, Michael H. Wilson, Benjamin Péret, Marina Oliva, Ranjan Swarup, Ilkka Sairanen, Geraint Parry, Karin Ljung, Tom Beeckman, Jonathan M. Garibaldi, Mark Estelle, Markus R. Owen, Kris Vissenberg, T. Charlie Hodgman, Tony P. Pridmore, John R King, Teva Vernoux, Malcolm J Bennett (2012) Root gravitropism is regulated by a transient lateral auxin gradient controlled by a tipping point mechanism. Accepted for publication in PNAS [* these authors contributed equally]Virtual Root
- Grunewald W, De Smet I, Lewis DR, Löfke C, Jansen L, Goeminne G, Vanden Bossche R, Karimi M, De Rybel B, Vanholme B, Teichmann T, Boerjan W, Van Montagu MCE, Gheysen G, Muday GK, Friml J, Beeckman T (2012) Transcription factor WRKY23 assists auxin distribution patterns during Arabidopsis root development through local control on flavonol biosynthesis. PNAS DOI: 10.1073/pnas.1121134109 Full-text @ Publishers website
- Anwesha N Fernandes, Xinyong Chen, Colin A Scotchford , James Walker , Darren M Wells, Clive J Roberts, Nicola M Everitt (2012) Mechanical properties of epidermal cells of whole living roots of Arabidopsis thaliana: An atomic force microscopy study. In press in Physical Review E DOI: 10.1103/PhysRevE.85.021916 Full-text @ Publishers websiteVirtual Root
- Mairhofer S, Zappala S, Tracy S, Sturrock C, Bennett M, Mooney S, Pridmore T (2011) RοοTrak: Automated Recovery of Three-Dimensional Plant Root Architecture in Soil from X-Ray Microcomputed Tomography Images Using Visual Tracking. Accepted for publication in Plant Physiology DOI: 10.1104/pp.111.186221 Full-text @ Publishers websiteRoot Systems ArchitectureVirtual Root
- Huang R, Becker A, Jones A (2011) Modelling cell wall growth using a fibre-reinforced hyperelastic–viscoplastic constitutive law. Journal of the Mechanics and Physics of Solids 60, 750–783 DOI: 10.1016/j.jmps.2011.12.003 Full-text @ Publishers websiteVirtual Root
- Fernandes AN, Thomas LH, Altaner CM, Callow P, Forsyth VT, Apperley DC, Kennedy CJ, Jarvis MC (2011) Nanostructure of cellulose microfibrils in spruce wood. PNAS DOI: 10.1073/pnas.1108942108 Full-text @ Publishers website
- Gibbs DJ, Lee SC, Isa NM, Gramuglia S, Fukao, T, Bassel GW, Sousa Correia C, Corbineau F, Theodoulou FL, Bailey-Serres J, Holdsworth MJ (2011) Homeostatic response to hypoxia is regulated by the N-end rule pathway in plants. Nature DOI: 10.1038/nature10534 Full-text @ Publishers website
- Band LR, King JR (2011) Multiscale modelling of auxin transport in the plant-root elongation zone. In press in Journal of Mathematical Biology DOI: 10.1007/s00285-011-0472-y Full-text @ Publishers websiteVirtual Root
- Twycross J, Blakes J, Romero-Campero F, Krasnogor N (2011) The Infobiotics Workbench: an Integrated In Silico Modelling Platform for Systems and Synthetic Biology. Bioinformatics 27 (23): 3323–3324 DOI: 10.1093/bioinformatics/btr571 Full-text @ Publishers websiteVirtual Root
- Pearce S.P., King J.R., Holdsworth M.J. (2011) Axisymmetric indentation of curved elastic membranes by a convex rigid indenter. International Journal of Non-Linear Mechanics 46(9), 1128–1138 DOI: 10.1016/j.ijnonlinmec.2011.04.030 Full-text @ Publishers websitevSeed
- Bassel GW, Glaab E, Marquez J, Holdsworth MJ, Bacardit J (2011) Functional Network Construction in Arabidopsis Using Rule-Based Machine Learning on Large-Scale Data Sets. The Plant Cell 23, 3101–3116 DOI: 10.1105/tpc.111.088153 Full-text @ Publishers websitevSeed
- Dupeux F, Santiago J, Betz K, Twycross J, Park S-Y, Rodriguez L, Gonzalez-Guzman M, Jensen M, Krasnogor N, Holdsworth MJ, Blackledge M, Cutler S, Rodriguez P, Marquez J (2011) A Thermodynamic Switch Modulates Abscisic Acid Receptor Sensitivity. EMBO Journal 30, 4171 – 4184 vSeed
- Muraro D, Byrne H, King J, Voß U, Kieber J, Bennett M. (2011) The influence of cytokinin-auxin cross-regulation on cell-fate determination in Arabidopsis thaliana root development. Journal of Theoretical Biology 283:152–167 [Faculty of 1000 - top 2% in biology and medicine papers]Virtual Root
- Bassel G, Holdsworth M, Provart N (2011) Seed bioinformatics. Methods in Molecular Biology 773 (8), 403–419 DOI: 10.1007/978-1-61779-231-1_23 Full-text @ Publishers websitevSeed
- Vernoux T, Brunoud G, Farcot E, Morin V, Van den Daele H, Legrand J, Oliva O, Das P, Larrieu A, Wells D, Guédon Y, Armitage L, Picard F, Guyomarc'h S, Cellier C, Parry G, Koumproglou R, Doonan JH, Kepinski S, Estelle M, Godin C, Bennett M, De Veylder L, Traas J (2011) The auxin signalling network translates dynamic input into robust patterning at the shoot apex. Molecular Systems Biology 7:508 DOI: 10.1038/msb.2011.39 Full-text @ Publishers websiteVirtual Root
- Daniele Muraro, Michael Wilson, Malcolm J. Bennett (2011) Root Development: Cytokinin Transport Matters, Too!. Current Biology 21, R423–R425 Virtual Root
- Bassel G.W., Lan H., Gibbs D.J., Gerjets T., Krasnogor N., Bonner A.J., Holdsworth M.J., Provart N.J. (2011) Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions. Proceedings of the National Academy of Sciences of the United States of America 108, 9709–14 vSeed
- Gendrea D, Oh J, Boutté Y, Best J.G, Samuels L, Nilsson R, Uemura T, Marchant A, Bennett M.J, Grebe M, Bhalerao R.P (2011) Conserved Arabidopsis ECHIDNA protein mediates trans–Golgi-network trafficking and cell elongation. PNAS 108, 8048–8053 Virtual Root
- Naeem A, French AP, Wells DM, Pridmore TP (2011) High-throughput feature counting and measurement of roots. Bioinformatics 27, 1337–1338 Virtual Root
- Sethuraman VS, French AP, Wells DM, Kenobi K, Pridmore TP (2011) Tissue-Level Segmentation and Tracking of Cells in Growing Plant Roots. Machine Vision and Applications DOI: 10.1007/s00138-011-0329-9 Full-text @ Publishers websiteVirtual Root
- Hacham Y, Holland N, Butterfield C, Ubeda-Tomas S, Bennett MJ, Chory J, Savaldi-Goldstein S (2011) Brassinosteroid perception in the epidermis controls root meristem size. Development 138, 839–48 Virtual Root
- Lucas M, Laplaze L, Bennett MJ (2011) Plant systems biology: network matters. Plant, Cell & Environment 34, 535–553 Virtual Root
- Sun J (2011) Two-stage EDA-based approach for all optical WDM mesh network survivability under SRLG constraints. Applied Soft Computing 11, 916–926 DOI: 10.1016/j.asoc.2010.01.012 Full-text @ Publishers website
- Ratnakumar S, Hesketh A, Gkargkas K, Wilson M, Rash BM, Hayes A, Tunnacliffe A, Oliver SG (2010) Phenomic and transcriptomic analyses reveal that autophagy plays a major role in desiccation tolerance in Saccharomyces cerevisiae. Molecular Biosystems 7, 139–149
- De Smet I, Voß U, Lau S, Wilson M, Shao N, Timme R, Swarup R, Kerr I, Hodgman C, Bock R, Bennett M, Jürgens G, Beeckman T (2010) Unraveling the evolution of auxin signaling. Plant Physiology 155, 209–221 Virtual Root
- Wells DM, Wilson MH, Bennett MJ (2010) Feeling UPBEAT about Growth: Linking ROS Gradients and Cell Proliferation. Developmental Cell 19, 644–6 Virtual Root
- Tobias I Baskin, Benjamin Peret, Frantisek Baluška, Philip N Benfey, Malcolm Bennett, Brian G Forde, Simon Gilroy, Ykä Helariutta, Peter K Hepler, Ottoline Leyser, Patrick H Masson, Gloria K Muday, Angus S Murphy, Scott Poethig, Abidur Rahman, Keith Roberts, Ben Scheres, Robert E Sharp, Chris Somerville (2010) Shootward and rootward: peak terminology for plant polarity. Trends in Plant Science 15, 593–594 Virtual Root
- Dhondt S, Coppens F, De Winter F, Swarup K, Merks R.M.H, Inzé D, Bennett M.J, Beemster G.T.S (2010) SHORT-ROOT and SCARECROW Regulate Leaf Growth in Arabidopsis by Stimulating S-Phase Progression of the Cell Cycle. Plant Physiology 155: 735–750 Virtual Root
- Lucas M, Swarup R, Paponov IA, Swarup K, Casimiro I, Lake D, Péret B, Zappala S, Mairhofer S, Whitworth M, Wang J, Ljung K, Marchant A, Sandberg G, Holdsworth MJ, Palme K, Pridmore T, Mooney S, Bennett MJ (2010) Short-Root regulates primary, lateral, and adventitious root development in Arabidopsis. Plant Physiology 155, 384–98 Virtual Root
- De Rybel B, Vassileva V, Parizot B, Demeulenaere M, Grunewald W, Audenaert D, Van Campenhout J, Overvoorde P, Jansen L, Vanneste S, Möller B, Wilson M, Holman T, Van Isterdael G, Brunoud G, Vuylsteke M, Vernoux T, De Veylder L, Inzé D, Weijers D, Bennett MJ, Beeckman T. (2010) A novel aux/IAA28 signaling cascade activates GATA23-dependent specification of lateral root founder cell identity. Current Biology 20, 1697–706 Virtual Root
- Sun J, Zhang Q, Li J (2010) Two-level evolutionary approach to the survivable mesh-based transport network topological design. Journal of Heuristics 16, 723–744 DOI: 10.1007/s10732-009-9115-5 Full-text @ Publishers website
- F Perrine-Walker, P Doumas, M Lucas, V Vaissayre, NJ Beauchemin, LR Band, J Chopard, G Crabos, G Conejero, B Péret, JR King, J-L Verdeil, V Hocher, C Franche, MJ Bennett, LS Tisa, L Laplaze (2010) Auxin carriers localization drives auxin accumulation in plant cells infected by Frankia in Casuarina glauca actinorhizal nodules. Plant Physiology 154, 1372–1380 Virtual Root
- Qian M, Wells DM, Jones A, Becker A (2010) Finite element modelling of cell wall properties for onion epidermis using a fibre-reinforced hyperelastic model. Journal of Structural Biology 172, 300–4 Virtual Root
- Sun J, Kaban A (2010) A fast algorithm for robust mixtures in the presence of measurement errors. IEEE Transactions on Neural Networks 21, 1206–1220 DOI: 10.1109/TNN.2010.2048219 Full-text @ Publishers website
- Kenobi K, Dryden IL, Le H (2010) Shape curves and geodesic modelling. Biometrika 7, 567–584 DOI: 10.1093/biomet/asq027 Full-text @ Publishers website
- Ubeda-Tomas S, Bennett MJ (2010) Plant Development: size matters, and it’s all down to hormones. Current Biology 20, 1138–1143 Virtual Root
- Middleton AM, King JR, Bennett MJ, Owen MR (2010) Mathematical modelling of the Aux/IAA negative feedback loop. Bulletin of Mathematical Biology 72, 1383–1407 Virtual Root
- Twycross J*, Band LR*, Bennett MJ, King J, Krasnogor N (2010) Stochastic and Deterministic Multiscale models for Systems Biology: an Auxin-Transport Case Study. BMC Systems Biology 4, 34 [* contributed equally]Virtual Root
- Smith RE, Jiang, MK, Bacardit J, Stout M, Krasnogor N, Hirst JD (2010) Learning Classifier System with Mutual-Information-Based Fitness. Evolutionary Intelligence 3, 31–50 DOI: 10.1007/s12065-010-0037-9 Full-text @ Publishers website
- Twycross J, Aickelin U, Whitbrook A (2010) Detecting Anomalous Process Behaviour using Second Generation Artificial Immune Systems. International Journal of Unconventional Computing 6, 301–326
- Benfey PN, Bennett MJ, Schiefelbein J (2010) Getting to the root of plant biology: impact of the Arabidopsis genome sequence on root research. The Plant Journal 61, 992–1000 Virtual Root
- Browne WJ, Dryden IL, Handley K, Mian S, Schadendorf, D (2010) Mixed effect modelling of proteomic mass spectrometry data using Gaussian mixtures. Journal of the Royal Statistical Society, Series C (Applied Statistics) 59, 617–633 DOI: 10.1111/j.1467-9876.2009.00706.x Full-text @ Publishers website
- De Smet I, Lau S, Voss U, Vanneste S, Benjamins R, Rademacher EH, Schlereth A, De Rybel B, Vassileva V, Grunewald W, Naudts M, Levesque MP, Ehrismann JS, Inzé D, Luschnig C, Benfey PN, Weijers D, Van Montagu MC, Bennett MJ, Jürgens G, Beeckman T (2010) Bimodular auxin response controls organogenesis in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America 107, 2705–2710
- Ahmed I, Parsons P, Jones I, Walker G, Scotchford CA, Rudd C (2010) Cytocompatibility and Effect of Increasing MgO Content in a Range of Quaternary Invert Phosphate-Based Glasses. J. Biomaterials Applications 276, 3561–3569
- Holman TJ*, Wilson MH*, Kenobi K*, Dryden IL, Hodgman TC, Wood ATA, Holdsworth MJ (2010) Statistical evaluation of transcriptomic data generated using the Affymetrix one-cycle, two-cycle and IVT-Express RNA labelling protocols with the Arabidopsis ATH1 microarray. Plant Methods 6, 9 [*authors contributed equally.]Virtual Root
- Dyson RJ, Jensen OE (2010) A fibre-reinforced fluid model of anisotropic plant cell growth. Journal of Fluid Mechanics 655, 472–503 DOI: 10.1017/S002211201000100X Full-text @ Publishers website
- Parry G, Calderon-Villalobos LI, Prigge M, Péret B, Dharmasiri S, Itoh H, Lechner E, Gray WM, Bennett MJ, Estelle M. (2009) Complex regulation of the TIR1/AFB family of auxin receptors. PNAS 106, 22540–5
- Ugartechea-Chirino Y, Swarup R, Swarup K, Péret B, Whitworth M, Bennett M, Bougourd S. (2009) The AUX1 LAX family of auxin influx carriers is required for the establishment of embryonic root cell organization in Arabidopsis thaliana. Annals of Botany 105, 277–289
- Laplaze L, Benková E, Casimiro I, Maes L, Vanneste S, Swarup R, Weijers D, Calvo V, Parizot B, Herrera-Rodriguez MB, Offringa R, Graham NS, Doumas P, Friml J, Bogusz D, Beeckman T, Bennett MJ (2009) Cytokinins Act Directly on Lateral Root Founder Cells to Inhibit Root Initiation. The Plant Cell 19, 3889–3900
- Wright EF, Wells DM, French AP, Howells C, Everitt NM (2009) A low-cost automated focusing system for time-lapse microscopy. Measurement Science & Technology 20 DOI: 10.1088/0957-0233/20/2/027003 Full-text @ Publishers websiteVirtual Root
- Band LR, Riley DS, Matthews PC, Oliver J, Waters SL (2009) Annular thin-film flows driven by azimuthal variations in interfacial tension. Quarterly Journal of Mechanical & Applied Mathematics 62, 403–430 DOI: 10.1093/qjmam/hbp015 Full-text @ Publishers website
- Penfield S, King JR (2009) Towards a systems biology approach to understanding seed dormancy and germination. Proceedings of the Royal Society B. 276, 3561–3569
- Holman TJ, Jones PD, Russell L, Medhurst A, Úbeda-Tomás S, Talloji P, Footitt S, Bachmair A, Theodoulou FL, Holdsworth MJ (2009) The N-end rule pathway promotes seed germination and establishment through removal of ABA sensitivity in Arabidopsis. PNAS 106, 4549–4554 vSeed
- Twycross J, Aickelin U (2009) Information Fusion in the Immune System. Information Fusion (Special Issue on Biologically Inspired Information Fusion) 11, 35–44 DOI: 10.1016/j.inffus.2009.04.008 Full-text @ Publishers website
- Péret B, De Rybel B, Casimiro I, Benkova I, Swarup R, Laplaze L, Beeckman T, Bennett MJ (2009) Arabidopsis lateral root development: an emerging story. Trends in Plant Science 14, 399–408
- French AP, Úbeda-Tomás S, Holman TJ, Bennett MJ, Pridmore TP (2009) High throughput quantification of root growth using a novel image analysis tool. Plant Physiology 150, 1784–1795 Virtual Root
- Broadley MR*, White PJ*, Hammond JP*, Graham NS*, Bowen HC, Emmerson ZF, Fray RG, Iannetta PPM, McNicol JW, May ST (2009) Evidence of neutral transcriptome evolution in plants. New Phytologist 180, 587–93 [*contributed equally]
- Úbeda-Tomás S, Federici F, Casimiro I, Beemster GTS, Bhalerao R, Swarup R, Doerner P, Haseloff J, Bennett MJ (2009) Gibberellin Signaling in the Endodermis Controls Arabidopsis Root Meristem Size. Current Biology 19, 1194–1199 Virtual Root
- Swarup R, Perry PJ, Hagenbeek D, Van Der Straeten D, Beemster GTS, Sandberg G, Bhalerao R, Ljung K, Bennett MJ (2009) Ethylene Upregulates Auxin Biosynthesis in Arabidopsis Seedlings to Enhance Inhibition of Root Cell Elongation. Plant Cell 19, 2186–2196
- Stout M, Bacardit J, Hirst JD, Smith RE, Krasnogor N (2009) Prediction of Topological Contacts in Proteins Using Learning Classier Systems. Soft Computing 19, 245–258 DOI: 10.1007/s00500-008-0318-8 Full-text @ Publishers website
- Romero-Campero FJ, Twycross J, Camara M, Bennett MJ, Gheorghe M, Krasnogor N (2009) Modular Assembly of Cell Systems Biology Models Using P Systems. International Journal of Foundations of Computer Science 20, 427–442 DOI: 10.1142/S0129054109006668 Full-text @ Publishers websiteVirtual Root
- Edwards HK, Fay MW, Anderson SI, Scotchford CA, Grant DM, Brown PD (2009) An appraisal of ultramicrotomy, FIBSEM and cryogenic FIBSEM techniques for the sectioning of biological cells on titanium substrates for TEM investigation. Journal of Microscopy 234, 16–25
- Whittaker RJ, Booth RJS, Dyson RJ, Bailey CL, Parsons Chini L, Naire S, Payvandi S, Rong Z, Woollard H, Cummings LJ, Waters SL, Mawasse L, Chaudhuri JB, Ellis MJ, Michael V, Kuiper NJ, Cartmell S (2009) Mathematical modelling of fibre-enhanced perfusion inside a tissue-engineering bioreactor. Journal of Theoretical Biology 256, 533–546 DOI: 10.1016/j.jtbi.2008.10.013 Full-text @ Publishers website
- Shipley RJ, Jones GW, Dyson RJ, Sengers BG, Bailey CL, Catt CJ, Please CP, Malda J (2009) Design criteria for a printed tissue engineering construct: A mathematical homogenization approach. Journal of Theoretical Biology 259, 489–502 DOI: 10.1016/j.jtbi.2009.03.037 Full-text @ Publishers website
- Bikard D, Patel D, Le Mette C, Giorgi V, Camilleri C, Bennett MJ, Loudet O (2009) Divergent evolution of duplicate genes leads to genetic incompatibilities within Arabidopsis thaliana. Science 323, 623–626
- Efeoglu C, Burke JL, Parsons AJ, Aitchison GA, Scotchford CA, Rudd C, Vikram A, Fisher SE (2009) Analysis of calvarial bone defects in rats using microcomputed tomography: potential for a novel composite material and a new quantitative measurement. British J Oral and Maxillofacial Surgery 47, 616–621
- Band LR, Hall CL, Richardson G, Jensen OE, Siggers JH, Foss A (2009) Intracellular flow in optic-nerve axons: a mechanism for cell death in glaucoma. Investigative Ophthalmology & Visual Science 50, 3750–3758
- Band LR, Cummings LJ, Waters SL, Wattis JAD (2009) Modelling crystal aggregation and deposition in the catheterised lower urinary tract. Journal of Mathematical Biology 59, 809–840 DOI: 10.1007/s00285-009-0253-z Full-text @ Publishers website
- Péret B, Larrieu A, Bennett MJ (2009) Lateral root emergence: a difficult birth. Journal of Experimental Botany 60, 3637–3643 Virtual Root
- Dyson RJ, Brander J, Breward CJW, Howell PD (2009) Long-wavelength stability of an unsupported multilayer liquid film falling under gravity. Journal of Engineering Mathematics 64, 237–250 DOI: 10.1007/s10665-009-9278-y Full-text @ Publishers website
- Hickman GJ, Hodgman TC (2009) Inference of gene regulatory networks using Boolean-Network inference methods. Journal of Bioinformatics and Computational Biology 7, 1013–29 DOI: 10.1142/S0219720009004448 Full-text @ Publishers website
- Kovács K, Fray RG, Tikunov Y, Graham NS, Bradley G, Seymour GB, Bovy AG, Grierson D (2009) Effect of tomato pleiotropic ripening mutations on flavour volatile biosynthesis. Phytochemistry 70, 1003–1008
- Romero-Campero FJ, Twycross J, Cao H, Blakes J, Krasnogor N (2009) A Multiscale Modelling Framework Based On P-Systems. Proceedings of the Workshop on Membrane Computing (WMC9) Lecture Notes in Computer Science, 5391 Virtual Root
- Dietrich D, Schmuths H, DeMarcos Lousa C, Baldwin JM, Baldwin SA, Baker A, Theodoulou FL, Holdsworth M (2009) Mutations in the Arabidopsis ABC Transporter COMATOSE allow differentiation between different functions in planta: insights from an allelic series. Molecular Biology of the Cell 20, 530–543 vSeed
- De Smet I, Vassileva V, De Rybel B, Levesque MP, Wim Grunewald W, Van Damme D, Van Noorden G, Naudts M, Van Isterdael G, De Clercq R, Wang JY, Meuli N, Vanneste S, Friml J, Hilson P, Jürgens G, Ingram GC, Inzé D, Benfey PN, Beeckman T (2008) Receptor-Like Kinase ACR4 Restricts Formative Cell Divisions in the Arabidopsis Root . Science 322:594–597
- Swarup K, Benková E, Swarup R, Casimiro I, Péret B, Yang Y, Parry G, Nielsen E, De Smet I, Vanneste S, Levesque MP, Carrier DJ, James N, Calvo V, Ljung K, Kramer EM, Roberts R, Graham NS, Marillonnet S, Patel K, Jones JDG, Taylor CG, Schachtman DP, May ST, Sandberg G, Benfey PN, Friml J, Kerr ID, Beeckman T, Laplaze L, Bennett MJ (2008) The auxin influx carrier LAX3 promotes lateral root emergence. Nature Cell Biology 10, 946–954
- Spaniolas S, Tsachaki M, Bennett MJ, Tucker GA (2008) Toward the authentication of wines of Nemea denomination of origin through cleaved amplified polymorphic sequence (CAPS)-based assay. Agricultural and Food Chemistry 10, 7667–71
- Jones AR, Kramer EM, Knox K, Swarup R, Bennett MJ, Lazarus CM, Leyser HMO, Grierson CS (2008) Auxin transport through non-hair cells sustains root-hair development. Nature Cell Biology 11, 78–84
- Levitsky V, Ignatieva E, Aman E, Merkulova T, Kolchanov N, Hodgman TC (2008) Genetic algorithm and optimized weight matrix application for peroxisome proliferator response elements recognition. Intelligent Data Analysis 12, 513–526
- Holdsworth MJ, Finch-Savage WE, Grappin P, Job D (2008) Post-genomics dissection of seed dormancy and germination. Trends In Plant Science 13, 7–13
- Carrier DJ, Tendot Abu Bakar N, Swarup R, Callaghan R, Napier R, Bennett MJ, Kerr ID (2008) The Binding of Auxin to the Arabidopsis Auxin Influx Transporter AUX1. Plant Physiology 148, 1–7
- Komarova NY, Thor K, Gubler A, Meier S, Dietrich D, Weichert A., Suter Grotemeyer M., Tegeder M., Rentsch D. (2008) AtPTR1 and AtPTR5 transport dipeptides in planta. Plant Physiology 148, 856–869
- Bennett MJ, Monk NAM (2008) The flowering of systems approaches in plant and crop biology. New Phytologist 179, 568–570
- Bainbridge K, Guyomarc'h S, Bayer E, Swarup R, Bennett MJ, Mandel T, Kuhlemeier C (2008) Auxin influx carriers stabilize phyllotactic patterning. Genes and Development 22, 810–823
- Stout M, Bacardit J, Hirst JD, Krasnogor N (2008) Prediction of Recursive Convex Hull Class Assignments for Protein Residues. Bioinformatics 24, 916–923
- French AP, Mills S, Swarup R, Bennett MJ, Pridmore TP (2008) Colocalization of fluorescent markers in confocal microscope images of plant cells. Nature Protocols 3, 619–628 Virtual Root
- Gallego-Giraldo L, Úbeda-Tomás S, Gisbert C, García-Martínez JL, Moritz T, López-Díaz I (2008) Gibberellin homeostasis in tobacco is regulated by gibberellin metabolism genes with different gibberellin sensitivity. Plant Cell Physiology 49, 679–690
- Carrera E, Holman TJ, Medhurst A, Dietrich D, Footitt S, Theodoulou FL, Holdsworth MJ (2008) Seed after-ripening is a discrete developmental pathway associated with specific gene networks in Arabidopsis. The Plant Journal 53, 214–224
- Bennett MJ, Hammond JP, White PJ (2008) Preface Special Issue: Transport of plant growth regulators. Journal of Experimental Botany 59, IV DOI: 10.1093/jxb/erm362 Full-text @ Publishers website
- Savage NS, Walker T, Wieckowski Y, Schiefelbein J, Dolan L, Monk NAM (2008) Mutual support of alternative cell fates through intercellular movement of CAPRICE and GLABRA3 provides a mechanism for patterning the Arabidopsis root epidermis. PLoS Biology 6, e235
- Dryden IL, Kume A, Le H, Wood ATA (2008) Statistical inference for functions of the covariance matrix in the stationary Gaussian time-orthogonal principal components model. Annals of the Institute of Statistical Mathematics 62, 967–994 DOI: 10.1007/s10463-008-0202-4 Full-text @ Publishers website
- Dryden IL, Kume A, Le H, Wood ATA (2008) A multidimensional scaling approach to shape analysis. Biometrika 95, 779–798 DOI: 10.1093/biomet/asn050 Full-text @ Publishers website
- Úbeda-Tomás S, Swarup R, Coates J, Swarup K, Beemster GTS, Bhalerao R, Bennett MJ (2008) Root growth in Arabidopsis requires gibberellin/DELLA signalling in the endodermis. Nature Cell Biology 10, 625–628 Virtual Root
- Gherbi H, Markmann K, Svistoonoff S, Estevan J, Autran D, Giczey G, Auguy F, Péret B, Laplaze L, Franche C, Parniske M, Bogusz D (2008) SymRK defines a common genetic basis for plant root endosymbioses with arbuscular mycorrhiza fungi, rhizobia, and Frankiabacteria. PNAS 105, 4928–32
- Péret B, Svistoonoff S, Lahouze B, Auguy F, Santi C, Doumas P, Laplaze L (2008) A Role for auxin during actinorhizal symbioses formation?. Plant Signaling and Behaviour 3, 34–35
- Ubeda-Tomás S, Edvardsson E, Eland C, Singh SK, Zadik D, Aspeborg H, Gorzsàs A, Teeri TT, Sundberg B, Persson P, Bennett MJ and Marchant A (2007) Genomic assisted identification of genes involved in secondary growth in Arabidopsis utilizing transcript profiling of Poplar wood forming tissues. Physiologia Plantarum 129(2): 415–428
- Péret B, Swarup R, Jansen L, Devos G, Auguy F, Collin M, Santi C, Hocher V, Franche C, Bogusz D, Bennett MJ, Laplaze L. (2007) Auxin influx activity is associated with Frankia infection during actinorhizal nodule formation in Casuarina glauca. Plant Physiology 144, 1852–62
- Graham NS, Broadley MR, Hammond JP, White PJ, May ST (2007) Optimising the analysis of transcript data using high density oligonucleotide arrays and genomic DNA-based probe selection. BMC Genomics 8, 344
- Aickelin U, Twycross J, Hesketh-Roberts T (2007) Rule Generalisation in Intrusion Detection Systems using Snort. International Journal of Electronic Security and Digital Forensics 1, 101–116
- Amaral GJA, Dryden IL, Wood ATA (2007) Pivotal bootstrap methods for k-sample problems in directional statistics and shape analysis. Journal of the American Statistical Association 102, 695–707 DOI: 10.1198/016214506000001400 Full-text @ Publishers website
- Footitt S, Dietrich D, Fait A, Fernie AR, Holdsworth MJ, Baker A, Theodoulou FL (2007) The COMATOSE ATP-binding cassette transporter is required for full fertility in Arabidopsis. Plant Physiology 144, 1467–1480
- Holdsworth MJ, Bentsink L, Soppe WJJ (2007) Molecular networks regulating Arabidopsis seed maturation, after-ripening, dormancy and germination. New Phytologist 179, 33–54
- Miller AJ, Fan X, Smith SJ, Wells DM (2007) Nitrate transport and signalling. Journal of Experimental Botany 58, 2297–2306 DOI: 10.1093/jxb/erm066 Full-text @ Publishers website
- Kim J, Bentley P, Aickelin U, Greensmith J, Tedesco G, Twycross J (2007) Immune System Approaches to Intrusion Detection – A Review. Natural Computing Journal
- Ubeda-Tomás S, García-Martínez JL, López-Díaz I (2006) Molecular, biochemical and physiological characterization of gibberellin biosynthesis and catabolism genes from Nerium oleander. Journal of Plant Growth Regulation 25, 52–68
- Hodgman TC, Ugartechea-Chirino Y, Tansley G, Dryden I (2006) The implications for bioinformatics of integration across the scales. Journal of Integrative Bioinformatics 3, 39 DOI: 10.2390/biecoll-jib-2006-39 Full-text @ Publishers website
- Dharmasiri S*, Swarup R*, Mockaitis K, Dharmasiri N, Singh SK, Kowalchyk M, Marchant A, Mills S, Sandberg G, Bennett MJ, and Estelle M (2006) AXR4 Is Required for Localization of the Auxin Influx Facilitator AUX1. Science 312, 1218–20 [These authors contributed equally to this work.]
- Swarup R, Kramer EM, Perry P, Knox K, Leyser HMO, Haseloff J, Beemster GTS, Bhalerao R, Bennett MJ (2005) Root gravitropism requires lateral root cap and epidermal cells for transport and response to a mobile auxin signal. Nature Cell Biology 7, 1057–1065
- Ubeda-Tomás S, Swarup K, Perry P, Swarup R, Bennett M.J. (2005) Dissecting the molecular and cellular regulation of primary root growth in the model plant Arabidopsis thaliana. Aspects of Applied Biology 73, 107–110
- Clark LJ, Gowing DJG, Lark RM, Leeds-Harrison PB, Miller AJ, Wells DM, Whalley WR, Whitmore AP (2005) Sensing the physical and nutritional status of the root environment in the field: a review of progress and opportunities. Journal of Agricultural Science 143, 347–358 DOI: 10.1017/S0021859605005253 Full-text @ Publishers website
- Dietrich D, Hammes U, Thor K, Suter M, Flückiger R, Slusarenko AJ, Ward JM, Rentsch D (2004) AtPTR1, a plasma membrane peptide transporter expressed during seed germination and in vascular tissue of Arabidopsis. The Plant Journal 40, 488–499
- Miranda Borisjuk ML, Tewes A, Dietrich D, Rentsch D, Weber, H, Wobus, U (2003) Peptide and Amino Acid Transporters Are Differentially Regulated during Seed Development and Germination in Faba Bean. Plant Physiology 132, 1950–1960
- Williamson M, Twycross J, Griffin J, Norman A (2003) Virus Throttling. Virus Bulletin
- Müller A, Guan C, Gälweiler L, Tänzler P, Huijser P, Marchant A, Parry G, Bennett M, Wisman E, and Palme K (1998) AtPIN2 defines a locus of Arabidopsis for root gravitropism control. EMBO Journal 17, 6903 – 6911
- Bennett MJ, Marchant A, Green HG, May ST, Ward SP, Millner PA, Walker AR, Schulz B, and Feldmann KA (1996) Arabidopsis AUX1 Gene: A Permease-Like Regulator of Root Gravitropism. Science 273, 948–950
REPORTS
- LR Band, RJ Dyson, IL Chernyavsky, B Piette, FZ Nouri (2010) Intracellular dynamics of secretory vesicles in the tip of growing pollen tubes. Proceedings of the 3rd Mathematics in the Plant Sciences study group
- Middleton AM, Ward JP, King JR (2009) A model for floral organ development in Arabidopsis. Proceedings of the 2nd Mathematics in the Plant Sciences Study Group
- McCue S, Bartsch T, Dyson RJ, Beguerisse-Diaz M, Jensen OE (2009) Modelling cell separation during plant organ abscission. Proceedings of the 2nd Mathematics in the Plant Sciences Study Group
- Band LR, Preston SP, White S, Tindall M (2009) Modelling landrace structure in under-utilised crops: the bambara groundnut example. Proceedings of the 2nd Mathematics in the Plant Sciences Study Group
- Middleton AM, Dyson RJ, Band LR, Grandison S, Wells DM, Holman TJ, Twycross J, Jensen OE (2008) The Mechanics of Arabidopsis Seed Germination. Proceedings of the Mathematics in the Plant Sciences Study Group Virtual Root
- Wells DM, Miller AJ (2005) Soil sensors for nitrogen availability. DEFRA Final Report
BOOKS or CHAPTERS
- Andrew French, Darren Wells, Nicola Everitt, Tony Pridmore (2012) High-Throughput Quantification of Root Growth. Measuring Roots: An Updated Approach. Chapter 7. Mancuso, Stefano (Ed.) January 1, 2012 ISBN: ISBN 978-3-642-22066-1Virtual Root
- Michael Burrell, Simona Francese, Duncan D. Cameron, Chloe Steels, Malcolm Bennett, Darren Wells, Tara Holman, Jonathan Leake, Malcolm Clench (2010) MALDI-MSI – a new tool for metabolite analysis in forensic science. ISBN: 978-989-26-0049-9Virtual Root
- T. Charlie Hodgman, Andrew French, David Westhead (2010) Instant Notes in Bioinformatics, 2nd Edition. Taylor & Francis, Abingdon, UK ISBN: 978-0-415-39494-9Virtual Root
- Gollapudi S, Marshall A, Zadik D, Hodgman TC (2009) Graphical Analysis and visualisation tools for protein interaction networks. Biological Data Mining in Protein Interaction Networks. Editors: Li XL, Ng SK. Publisher: Information Science Reference, Hershey, New York
- Kerr ID, Carrier DJ, Twycross J (2009) Hormone Transport. Plant Cell Monographs - The Plant Plasma Membrane. Editors: Murphy A, Peer W, Schulz B. Publisher: Springer, Berlin
- Twycross J, Aickelin U (2009) An Immune-inspired Approach to Anomaly Detection. Handbook of Research on Information Assurance and Security - Chapter 10. Editors: Gupta JND, SharmaSK. Publisher: IGI Global, New York
- Scotchford CA (2009) Cell Response to surface chemistry in biomaterial. Cellular responses to biomaterials. Editors: Di Silvio L. Publisher: Woodhead Publishing, Cambridge
- Miller AJ, Borras J, Smith SJ, Wells DM (2007) Measuring changes in soil nutrient availability at the root surface using ion-selective electrodes in Advanced Technologies for Measuring Nutrient and Water Availability to Plants. Proceedings of the Dahlia Greidinger Symposium, Grand Water Research Institute, Haifa pp. 31-49
- Miller AJ, Wells DM (2006) Electrochemical methods and measuring trans-membrane ion gradients. Plant Electrophysiology – Theory and Methods. Volkov, A.J. (Ed.) Springer-Verlag pp 15-34 ISBN: 978-3-540-32717-2
CONFERENCE-PROCEEDINGS
- Garcia C, Lima C, Twycross J, Krasnogor N, Lozano M (2010) P System Model Optimisation by Means of Evolutionary Based Search Algorithms. Accepted for publication in Proceedings of the Genetic and Evolutionary Computation Conference
- Ratcliffe JA, Grant DM, Scotchford CA, Oliver JM (2009) Modelling human osteoblast cells during initial adhesion on biomaterials surfaces. Proceedings of the 22nd European Conference on Biomaterials
- Sethuraman V, Taylor S, Pridmore TP, French AP, Wells DM (2009) Segmentation and Tracking of Confocal Images of Arabidopsis thaliana Root Cells using Automatically-Initialized Network Snakes. 3rd International Conference on Bioinformatics and Biomedical Engineering, Beijing, ChinaVirtual Root
- Blakes J, Krasnogor N, Romero-Campero FJ, Twycross J (2008) An Executable Biology Methodology for Systems and Synthetic Biology. Submitted to Proc. of the ECCB Satellite Meeting on Probabilistic Modelling in Computational Biology, Cagliari, Sardinia
- Romero-Campero FJ, Twycross J, Cao H, Krasnogor N (2008) A Multiscale Modelling Framework Based On P Systems. Lecture Notes in Computer Science 5391, 63–77 Proceedings of the Ninth Workshop on Membrane Computing, Edinburgh, UKVirtual Root
- French AP, Bennett MJ, Howells C, Patel D, Pridmore TP (2008) Probablilistic Tracking Approach to Root measurement in Images. Biosignals 2008 - International Conference on Bio-inspired Systems and Signal Processing - Madeira, PortugalVirtual Root
- Romero-Campero FJ, Twycross J, Bennett MJ, Camara M, Krasnogor N (2008) Modular Assembly of Cell Systems Biology Models Using P Systems. Proceedings of the Prague International Workshop on Membrane Computing - Prague, Czech Republic
- Twycross J, Aickelin U (2007) Biological Inspiration for Artificial Immune Systems. Proceedings of the 6th International Conference on Artificial Immune Systems - Santos/SP, Brazil
- Tedesco G, Twycross J, Aickelin U (2006) Integrating Innate and Adaptive Immunity in Intrusion Detection. Lecture Notes in Computer Science 4163, 193–202 Proceedings of the 5th International Conference on Artificial Immune Systems - Oeiras, Portugal
- Greensmith J, Aickelin U, Twycross J (2006) Articulation and Clarification of the Dendritic Cell Algorithm. Lecture Notes in Computer Science 4163, 404–417 Proceedings of the 5th International Conference on Artificial Immune Systems - Oeiras, Portugal
- Twycross J, Aickelin U (2006) libtissue – Implementing Innate Immunity. 499–506 Proceedings of the IEEE Congress on Evolutionary Computation - Vancouver, Canada
- Greensmith J, Twycross J, Aickelin U (2006) Dendritic Cells for Anomaly Detection. 664–671 Proceedings of the IEEE Congress on Evolutionary Computation - Vancouver, Canada
- Twycross J, Aickelin U (2005) Towards a Conceptual Framework for Innate Immunity. Lecture Notes in Computer Science 3627, 112–125 Proceedings of the 4th International Conference on Artificial Immune Systems - Banff, Canada
- Aickelin U, Greensmith J, Twycross J (2004) Immune System Approaches to Intrusion Detection – A Review. Lecture Notes in Computer Science 3239, 316–329 Proceedings of the 3rd International Conference on Artificial Immune Systems - Catania, Italy
- Greensmith J, Aickelin U, Twycross J (2004) Detecting Danger: Applying a Novel Immunological Concept to Intrusion Detection Systems. Proceedings of the 6th International Conference in Design and Manufacture - Bristol, UK
- Twycross J (2004) Immune Systems, Danger Theory and Intrusion Detection. 40–42 Proceedings of the AISB Symposium on Immune System and Cognition - Leeds, UK
- Twycross J, Williamson M (2003) Implementing and Testing a Virus Throttle. 285–294 Proceedings of the 12th USENIX Security Symposium - Washington, DC
- Twycross J, Cayzer S (2003) An Immune-Based Approach to Document Classification. 33–48 Proceedings of the International Conference on Intelligent Information Processing and Web Mining Systems - Zakopane, Poland
Presented Work
PRESENTATIONS
- Modelling hormone-regulated plant root growth. At: European Conference on Mathematical and Theoretical Biology, Krakow, Poland 2011 Virtual Root
- Virtual Plants. At: Knowledge Transfer Seminar, University of Nottingham June 22nd 2011 Virtual Root
- Auxin redistribution during gravitropism: new insights from a novel reporter and a systems-biology approach. At: Plant and Crop Sciences Seminar, University of Nottingham June 8th 2011 Virtual Root
- Systems Analysis of Root Cell Expansion. At: Modelling Cell Elongation Workshop. University of Nottingham February 7th-8th 2011 Virtual Root
- Hormone dilution and root cell elongation. At: Modelling cell elongation workshop, University of Nottingham 2011 Virtual Root
- Modelling mechanics and fluid dynamics of LR emergence. At: Lateral root workshop, University of Nottingham 2011 Virtual Root
- Systems Analysis of Hormone regulated Root Gravitropism: new insights into an old question.... At: 5th Annual BBSRC Grant Holders meeting, Imperial College London 2011 Virtual Root
- Multiscale modelling of hormone-regulated growth in plant roots. At: International Conference on Systems Biology (ICSB), Edinburgh, UK 2010 Virtual Root
- Seed traits and plant coexistence: Capsella as a model. At: British Ecological Society 2010 Annual Meeting 2010 Virtual Root
- Gravitropism. At: CPIB Showcase, University of Nottingham September 1st-2nd 2010 Virtual Root
- Cryo FIB/SEM of plant material. At: Nottingham Nanotechnology and Nanoscience Centre Researchers Forum. University of Nottingham July 26th 2010 Virtual Root
- Multiscale modelling at CPIB with OpenAlea. At: Plant Systems Biology Workshop, University of Nottingham, UK 2010 Virtual Root
- Auxin redistribution during root gravitropism: a systems biology approach. At: Plant Systems Biology Workshop, University of Nottingham, UK 1st-3rd June 2010 Virtual Root
- Multiscale modelling of plant root growth and development. At: Reading Systems Biology Network, University of Reading, UK Invited seminar speaker 2010 Virtual Root
- Segmentation and tracking of networks of Arabidopsis thaliana cells through Confocal laser microscope images. At: Microscopy Image Analysis for Biomedical Applications: A One Day BMVA symposium at the British Computer Society, London, UK 2010 Virtual Root
- Modelling Arabidopsis root growth. At: Department of Biological Sciences, Universite de Montreal, Montreal, CA Invited seminar speaker 2010 Virtual Root
- Multiscale modelling of plant root growth and development. At: Multiscale modelling in Systems Biology Workshop. University of Liverpool 2010 Virtual Root
- Modelling at the Centre for Plant Integrative Biology; Steps towards a Virtual Root. At: The Virtual Plants group, INRIA, Montpellier, France Invited seminar speaker 2009 Virtual Root
- Imaging auxin responses and cell expansion in real time. At: USPA Workshop. University of Nottingham October 12th-13th 2009 Virtual Root
- Seed life history traits and myxospermy in time-to-flowering variants of shepherd’s purse (Capsella bursa-pastoris (L.) Medic.). At: British Ecological Society Annual Meeting - University of Hertfordshire 2009 Virtual Root
- Modelling at the Centre for Plant Integrative Biology: Steps Towards a Virtual Root. At: Cell and Experimental Biology section - University of California San Diego, USA Invited Seminar speaker 2009 Virtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: Within: Plant growth and its hormone regulation - Special Interdisciplinary Minisymposium, Society for Mathematical Biology Annual Meeting co-organiser 2009 Virtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: EUROMECH colloquium: New Advances and Directions in Thin Films 2009 Virtual Root
- Building a regulatory network for LR emergence. At: Institute of Environmental Biology and Biotechnology (IBEB) - CEA Cadarache, France 2009 Virtual Root
- Building tissue mechanics into novel types of multi-scale models. At: Cardiac Physiome Programme - Isaac Newton Institute for Mathematical Sciences, University of Cambridge 2009 Virtual Root
- Changes in cell-wall composition are the key to the regulation of root growth and development. At: COST workshop on Systems Biology for Plant Design - Wageningen 2009 Virtual Root
- Interdisciplinary Minisymposium: Plant root cell expansion. At: Society for Mathematical Biology Annual Meeting - University of British Columbia, CA Invited speaker at 2009 Virtual Root
- Lateral root development: an emerging story. At: Auxins and Cytokinins in Plant Development Symposium - Prague 2009 Virtual Root
- Modelling Auxin Transport. At: Plant Bioinformatics, Systems and Synthetic Biology Summer School - University of Nottingham, UK Invited session 2009 Virtual Root
- Modelling GA-regulated growth in the root elongation zone. At: Special Interdisciplinary Minisymposium at the Annual conference of the Society for Mathematical Biology - University of British Columbia, CA 2009 Virtual Root
- Thin film modelling of growing populations of cells. At: EUROMECH Colloquium 497 - Recent Developments and New Directions in Thin-Film Flow - Royal Society of Edinburgh invited 2009 Virtual Root
- A fibre-reinforced visco-hyperelastic material model for plant root cell elongation modeling. At: UK Association for Computational Mechanics in Engineering (ACME) - University of Nottingham, UK 2009 Virtual Root
- Adopting an integrative biology approach to study root growth and development. At: Opening meeting for the Centre for Systems Biology - University of Freiburg Invited speaker at 2009 Virtual Root
- Divide and impera: cell division in the root and its control through ABA. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Virtual Root
- Lateral root development: an emerging story. At: Seminar - University of Leiden 2009 Virtual Root
- Lateral root development: an emerging story. At: Seminar - CNRS-BPMP, Montpellier, France 2009 Virtual Root
- Lateral root development: an emerging story. At: Seminar - University of Aberdeen 2009 Virtual Root
- Multiscale modelling of hormone transport in plant roots. At: Frontiers in Applied and Computational Mathematics conference - New Jersey Institute of Technology, USA Invited speaker 2009 Virtual Root
- Building a regulatory network for LR emergence. At: 26th Annual Interdisciplinary Plant Group Symposium - Columbia, Missouri, USA 2009 Virtual Root
- Growing pains: developing systems approaches to study root elongation at CPIB. At: STEM seminar at the Centre for Biomolecular Sciences (CBMS) - University of Nottingham, UK 2009 Virtual Root
- Mathematical modelling of tissue growth. At: Mathematical Models of Collective Dynamics in Biology and Evolution - University of Leicester plenary 2009 Virtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: British Applied Mathematics Colloquium - University of Nottingham, UK 2009 Virtual Root
- Adopting an integrative biology approach to study root growth and development. At: Opening meeting for the Centre for Systems Biology - University of Reading, UK Invited speaker at 2009 Virtual Root
- Dissecting root cell expansion: from genes to jam. At: CPIB presentation to Syngenta - Syngenta, Jealotts Hill, UK 2009 Virtual Root
- Multiscale modelling of auxin transport in the root elongation zone. At: British Applied Mathematics Colloquium - University of Nottingham, UK 2009 Virtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: Biomechanics of Plant Growth - Bristol, UK 2009 Virtual Root
- Dissecting root cell expansion. At: Biomechanics of Growth in Plant Biology Event - University of Bristol 2009 Virtual Root
- Executable Models for Plant Systems Biology. At: UK Systems Biology Meeting - Warwick-HRI, UK 2009 Virtual Root
- Modelling hormone-regulated growth in the root elongation zone. At: Plant and Microbial Sciences - Imperial College London, UK Invited seminar speaker 2009 Virtual Root
- Modelling plant root cell elongation using a fibre-reinforced visco-hyperelastic material model. At: UK Plant Systems Biology Workshop - Warwick-HRI, UK 2009 Virtual Root
- Multiscale modelling of auxin transport in the root elongation zone. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Virtual Root
- Of shape and function: a case study of lateral root primordia in Arabidopsis thaliana. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Virtual Root
- The challenges of inferring gene regulatory networks. At: UK Plant Systems Biology meeting - Warwick-HRI, UK 2009 Virtual Root
- The CPIB web repository. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Virtual Root
- Lateral root development: an emerging story. At: Seminar - UCL, Belgium 2009 Virtual Root
- Lateral root development: an emerging story. At: Seminar - University of Durham 2009 Virtual Root
- Building a regulatory network for LR emergence. At: CBCB symposium on Dynamic Cellular Processes - University of Nottingham, UK 2008 Virtual Root
- CPIB: Modelling plant cell wall mechanics: from genes to jam. At: BBSRC Systems Biology Grantholder Workshop - University of Nottingham, UK 2008 Virtual Root
- Lateral root development: an emerging story. At: Seminar - Max Planck Institute, Cologne 2008 Virtual Root
- Adopting an integrative biology approach to study root growth and development. At: Centre for Systems Biology (CSBE) - University of Edinburgh 2008 Virtual Root
- Extensional Flows: examples from industrial curtain coating and plant root cell growth. At: Mathematics seminar series - Keele University, UK Invited seminar speaker. 2008 Virtual Root
- Extensional Flows: examples from industrial curtain coating and plant root cell growth. At: Mathematics seminar series - University of East Anglia Invited seminar speaker 2008 Virtual Root
- Adopting an integrative biology approach to study root growth and development. At: SEB Plant Symposium/GARNet Meeting - University of Nottingham, UK 2008 Virtual Root
- Root growth in Arabidopsis requires gibberellin/DELLA signalling in the endodermis. At: GARNet SEB Symposium - University of Nottingham, UK Plenary Talk. 2008 Virtual Root
- Unknown Presentation. At: Launch meeting of ESBLINK project - Syngenta, Jealotts Hill, UK 2008 Virtual Root
- Towards a Virtual Cell. At: Abingdon, UK Plenary talk 2008 Virtual Root
- Bayesian networks for Genetic Inference. At: CPIB/Rothamsted GA meeting 2008 Virtual Root
- Finding GA regulated genes using a transcriptomic approach. At: CPIB/Rothamsted GA meeting 2008 Virtual Root
- Future roots for Research. At: Root Workshop, 20th International Conference on Arabidopsis Research - Edinburgh, UK 2008 Virtual Root
- Mathematical modelling of the GA perception network. At: SEB - Marseille, France 2008 Virtual Root
- Unknown Presentation. At: Society of Experimental Biology Symposium on Systems Biology - Marseille, France Keynote Speaker 2008 Virtual Root
- Unknown Presentation. At: 19th International Conference on Arabidopsis Research - Montreal, CA 2008 Virtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: European Conference on Mathematical and Theoretical Biology - Edinburgh, UK 2008 Virtual Root
- A multiscale model of auxin transport in the root elongation zone of Arabidopsis. At: Advanced Workshop: The understanding and modelling of auxin transport in plants - University of Nottingham, UK 2008 Virtual Root
- Integrative Computational Modelling of Cell Systems. At: ASAP Group Research Away Day - University of Nottingham, UK 2008 Virtual Root
- Mechanical models of plant cell growth: advantages of taking an analytical approach. At: Plant Modelling Workshop - Université Catholique de Louvain 2008 Virtual Root
- Modelling Multicellular Developmental Processes in Plants. At: European Science Foundation-UB, Conference on Systems Biology - Barcelona 2008 Virtual Root
- Multiscale modelling of auxin transport in the root elongation zone. At: European conference on Mathematical and Theoretical Biology - Edinburgh, UK 2008 Virtual Root
- Stochastic Computational Modelling of Plant Systems. At: Advanced Workshop: The understanding and modelling of auxin transport in plants - University of Nottingham, UK 2008 Virtual Root
- The Aux/IAA negative feedback loop. At: Advanced Workshop: The understanding and modelling of auxin transport in plants - University of Nottingham, UK 2008 Virtual Root
- To divide or not to divide: How ABA affects root growth. At: GARNet 2008 - University of Nottingham, UK 2008 Virtual Root
- Unknown Presentation. At: 5th International Symposium on Adventitious Root Formation - Madrid, Spain Plenary Lecture 2008 Virtual Root
- Unknown Presentation. At: Jacques Monod Conference - Roscoff, France 2008 Virtual Root
- Workshop: Mathematical modelling of the Aux/IAA negative feedback loop. At: SEB - Marseille, France 2008 Virtual Root
- Probablilistic Tracking Approach to Root measurement in Images. At: Biosignals 2008 - International Conference on Bio-inspired Systems and Signal Processing - Madeira, Portugal 2008 Virtual Root
- Computational Models of Plant Development. At: ASAP Seminar. - University of Nottingham, UK 2008 Virtual Root
- The understanding and modelling of auxin transport in plant. At: CPIB Advanced Auxin Workshop - University of Nottingham, UK 2008 Virtual Root
- Topographical effects of RGD functionalised surfaces on osteoblast attachment and spreading. At: 8th World Biomaterials Congress - Amsterdam 2008 Virtual Root
- Bringing Life to Mathematics. At: Mathematics 2008 - The Institute of Mathematics and its Applications (IMA), London 2008 Virtual Root
- FIB and CryoFIB as applied to the life Sciences. At: 4th European FIB and Dual Beam User Club Meeting - Edinburgh, UK 2008 Virtual Root
- Unknown Presentation. At: Applied Bioinformatics and Public Health Microbiology meeting - Health Protection Agency Plenary talk 2008 Virtual Root
- Stem Cell Course. At: Wolfson Centre for Stem Cells, Tissue Engineering and Modelling - University of Nottingham, UK 2008 Virtual Root
- GA Transcriptomic Data. At: CPIB/Rothamsted GA meeting 2008 Virtual Root
- Hormone regulated root cell expansion: Transcriptomic approaches. At: CPIB/Rothamsted GA meeting 2008 Virtual Root
- Unknown Presentation. At: UPSC - Umea, Sweden 2008 Virtual Root
- Adopting an integrative biology approach to study root growth and development. At: 44th Winter Meeting, Dept. Molecular Biosciences - University of Oslo, Norway 2008 Virtual Root
- OCISB Launch meeting. At: OCISB - University of Oxford, UK Plenary talk 2008 Virtual Root
- Computational Modelling of Plant Development. At: InfoBiotics Project Launch. - University of Nottingham, UK 2007 Virtual Root
- Unknown Presentation. At: Dissecting hormone regulated root development Workshop - Belgium 2007 Virtual Root
- Analysis of root morphology in images of plated roots. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Virtual Root
- Mathematical modelling of the GA perception network. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Virtual Root
- Unknown Presentation. At: Seminar - Exeter University, UK 2007 Virtual Root
- Unknown Presentation. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Virtual Root
- Unknown Presentation. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Virtual Root
- GA Transcriptomic Data. At: CPIB/Rothamsted GA meeting 2007 Virtual Root
- Modelling root cell expansion using an integrative biology approach. At: Plant Genomics European Meeting - Tenerife Speaker 2007 Virtual Root
- Unknown Presentation. At: Seminar - University of Southampton, UK 2007 Virtual Root
- Root development: an emerging story. At: British Society of Development Biology Autumn Meeting - University of Sheffield, UK 2007 Virtual Root
- Unknown Presentation. At: New Phytologist Symposium, Systems biology and the Biology of Systems - Buxton, UK 2007 Virtual Root
- Unknown Presentation. At: IUAPVI/33 Meeting - Ghent 2007 Virtual Root
- Hormonal control of Root Growth in Arabidopsis thaliana. At: Centre for Biochemistry and Cell Biology 3rd Annual Symposium - University of Nottingham, UK 2007 Virtual Root
POSTERS
- Using engineering techniques to investigate plant biology questions. At: Annual Plant Biology Symposium at the University of Massachusetts Amherst 2011 Nicola Everitt, Darren Wells, Andy FrenchVirtual RootvSeed
- DRIVE-db. At: 5th BBSRC Systems Biology Grant Holders' Workshop 2011 Michael Wilson, Andrew French, Darren Wells, Michael Stout, Charlie Hodgman, Tony PridmoreVirtual Root
- Systems analysis of lateral root development. At: 5th BBSRC Systems Biology Grant Holders' Workshop 2011 Ute Voβ, Kim Kenobi, Michael Wilson, Mikaël Lucas, Benjamin Péret, Charlie Hodgman, Malcom J. BennettVirtual Root
- Segmentation and Tracking of Networks of Arabidopsis thaliana Cells through Confocal Laser Microscope Images. At: 11th International Conference on Systems Biology, Edinburgh, Scotland, UK 2010 Andrew French, Vijay Sethuraman, Darren Wells, Tony PridmoreVirtual Root
- The mechanics of cell expansion in the root elongation zone. At: Modelling at multiple scales in biology, Oxford 2010 RJ Dyson, T Holman, DM Wells, M Wilson, MJ Bennett, NM Everitt, OE Jensen Virtual Root
- Segmentation and tracking of Arabidopsis thaliana root cells using automatically initialized network snakes. At: 4th BBSRC Systems Biology Grant Holders' Workshop. Edinburgh 2010 V Sethuraman, AP French, DM Wells, J Twycross, TP PridmoreVirtual Root
- Characterising the mechanical properties of elongating root cells. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Wells DM, Dyson RJ, Qian M, Bennett MJ, Hodgman TC, Jensen OE, Everitt NMVirtual Root
- DELLA-mediated transcriptional control of GA-responsive growth and development in Arabidopsis. At: 25th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Gronlund A, Griffiths J, Wanchoo A, Wilson MH, Holman TJ, Úbeda-Tomás S, Bennett MJ, Phillips A, Hedden P, Thomas SVirtual Root
- Establishing regulatory models for anther endothecium development and the regulation of dehiscence. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Yang C, Song J, Marshall A, Bradley G, Wilson ZAVirtual Root
- High-throughput functional genomics of cell wall dynamics during root growth and development. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Holman TJ, Wilson MH, Wells DM, Sørensen I, Willats W, Knox JP, Holdsworth MJ, Bennett MJVirtual Root
- Regulation of ABA signalling and lipid catabolism by the N-end rule pathway of targeted protein degradation. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Holman TJ, Jones PD, Russell L, Medhurst A, Úbeda-Tomás S, Talloji P, Footitt S, Bachmair A, Theodoulou FL, Holdsworth MJVirtual Root
- The CPIB RootAtlas: A Tool For Viewing Integrative Root Systems Biology Data. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Wilson MH, Holman TJ, French AP, Stout M, Wells DM, Kenobi K, Bennett MJ, Holdsworth MJ, Pridmore TP, Hodgman TCVirtual Root
- High throughput quantification of root growth. At: 20th International Conference for Arabidopsis Research. Edinburgh 2009 Andrew French, Darren M. Wells, Susana Ubeda-Tomás, Tara J. Holman, Nicola M. Everitt, Malcolm J. Bennett, Tony PridmoreVirtual Root
- The Use of Lasso Regression in Inferring Gene Regulatory Networks. At: 20th International Conference on Arabidopsis Research - Edinburgh, UK 2009 Kenobi K, Wood ATAVirtual Root
- A multiscale model of auxin transport in the root elongation zone. At: Bridging the Gaps interdisciplinary showcase - University of Nottingham, UK 2009 Band LRVirtual Root
- An Integrated Development Environment for Synthetic Biology Models. At: European Conference on Synthetic Biology II - Sant Feliu de Guixols, Spain 2009 Twycross JVirtual Root
- Arabidopsis Root Protein Atlas. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Oh J, Bennett MJ, Swarup RVirtual Root
- High-throughput functional genomics of cell wall dynamics during root growth and development. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Holman TJ, Wilson MH, Wells DM, Sørensen I, Willats W, Knox JP, Holdsworth MJ, Bennett MJVirtual Root
- The Centre for Plant Integrative Biology. At: Bridging the Gaps interdisciplinary showcase - University of Nottingham, UK 2009 Lydon SVirtual Root
- The Centre for Plant Integrative Biology. At: UK Plant Systems Biology Meeting - Warwick-HRI, UK 2009 Lydon SVirtual Root
- A fibre-reinforced fluid model of anisotropic plant cell growth. At: BBSRC Systems Biology Grantholder Workshop - University of Nottingham, UK 2008 Dyson RJ, Wells DM, Qian M, Becker A, Everitt NM, Jensen OE, King JR, Jones A, Tansley GVirtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: BBSRC Systems Biology Grantholder Workshop - University of Nottingham, UK 2008 Qian MVirtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: BBSRC Systems Biology Grantholder Workshop - University of Nottingham, UK 2008 Dyson RJVirtual Root
- A multiscale model of auxin transport in the root elongation zone. At: BBSRC Systems Biology Grantholder Workshop - University of Nottingham, UK 2008 Band LRVirtual Root
- A transcriptomic approach to investigate the effect of gibberellins on the elongation of Arabidopsis roots. At: GARNet-SEB Symposium - University of Nottingham, UK 2008 Holman TJ, Wilson MH, Úbeda-Tomás S, Griffiths J, Hedden P, Phillips A, Thomas S, Holdsworth MJ, Bennett MJVirtual Root
- DELLA-mediated transcriptional control of GA-responsive growth and development in Arabidopsis. At: GARNet-SEB Symposium - Norwich, UK 2008 Gronlund A, Griffiths J, Wanchoo A, Wilson MH, Holman TJ, Úbeda-Tomás S, Bennett MJ, Phillips A, Hedden P, Thomas SVirtual Root
- A fibre-reinforced fluid model of anisotropic plant cell growth. At: MMBNOTT/MRM Summer Workshop in Mathematical Medicine and Biology - University of Nottingham, UK 2008 Dyson RJ, Wells DM, Qian M, Becker A, Everitt NM, Jensen OE, King JR, Jones A, Tansley GVirtual Root
- A fibre-reinforced fluid model of anisotropic plant root cell growth. At: MMBNOTT/MRM Summer Workshop in Mathematical Medicine and Biology - University of Nottingham, UK 2008 Qian MVirtual Root
- Fine tuning of plant signalling pathways. At: Jacques Monod Conference - Roscoff, France 2008 Úbeda-Tomás SVirtual Root
- Systems biology approaches to root growth: visualisation and mathematical modelling. At: Third Conference on the Biosynthesis of Plant Cell Walls - Asilomar, CA 2008 Wells DM, Dyson RJ, Qian M, Wilson MH, Bennett MJ, Everitt NM, Jensen OE, Jones A, Tansley GDVirtual Root
- The Centre for Plant Integrative Biology. At: 8th World Biomaterials Congress - Amsterdam, NL 2008 Scotchford CAVirtual Root
- A Tissue-level P-system Model of Auxin Transport in the Arabidopsis Root. At: ESF Systems Biology Conference - Sant Feliu de Guixols, Spain 2008 Twycross JVirtual Root
- A community driven network for Arabidopsis primary cell wall development. At: Centre for Biochemistry and Cell Biology 3rd Annual Symposium - University of Nottingham, UK 2007 Wilson MH, Li X, Bennett MJ, Hodgman TCVirtual Root
- A transcriptomic approach to investigate the effect of gibberellins on the elongation of Arabidopsis roots. At: Centre for Biochemistry and Cell Biology 3rd Annual Symposium - University of Nottingham, UK 2007 Holman TJ, Wilson MH, Úbeda-Tomás S, Griffiths J, Hedden P, Phillips A, Thomas S, Holdsworth MJ, Bennett MJVirtual Root
- A transcriptomic approach to investigate the effect of gibberellins on the elongation of Arabidopsis roots. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Holman TJ, Wilson MH, Úbeda-Tomás S, Griffiths J, Hedden P, Phillips A, Thomas S, Holdsworth MJ, Bennett MJVirtual Root
- Root growth requires gibberellin/DELLA signalling in the endodermis. At: BBSRC Systems Biology Grantholder Workshop - Newcastle, UK 2007 Úbeda-Tomás SVirtual Root
- Hormonal control of Root Growth in Arabidopsis thaliana. At: GARNet-SEB Symposium - Norwich, UK 2007 Úbeda-Tomás SVirtual Root
- Robust probabilistic methods to trace and label a growing root. At: Workshop on growth phenotyping and imaging in plants - Montpellier 2007 French AP, Pridmore TP, Úbeda-Tomás S, Bennett MJVirtual Root
- Tracking multiple fluorescence-marked features in time-series confocal image. At: Biology in Motion Conference - Evian, CH 2007 French AP, Kurup S, Runions J, Bennett MJ, Pridmore TPVirtual Root