Charlie Hodgman
background | publicationsCharlie Hodgman is Professor of Bioinformatics and Systems Biology at the University of Nottingham and the Director of the Centre for Plant Integrative Biology.
Published Work
PAPERS
- L.R. Band, S. Ubeda-Tomas, R.J. Dyson, A.M. Middleton, T.C. Hodgman, M.R. Owen, O.E. Jensen, M.J. Bennett, J.R. King (2012) Growth-induced hormone dilution can explain the dynamics of plant root cell elongation. In press in PNAS DOI: 10.1073/pnas.1113632109 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. PNAS 109, 4668–4673 [* these authors contributed equally]Virtual Root
- 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
- Nathan Mellor, Frances Bligh, Ian Chandler, Charlie Hodgman (2010) Reduction of off-flavor generation in soybean homogenates: a mathematical model. Journal of Food Science 75, R131–R138
- 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
- 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
- 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
- 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
BOOKS or CHAPTERS
- 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
Presented Work
PRESENTATIONS
- 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 Hodgman TCVirtual Root
- The challenges of inferring gene regulatory networks. At: UK Plant Systems Biology meeting - Warwick-HRI, UK 2009 Hodgman TCVirtual Root
- Unknown Presentation. At: Launch meeting of ESBLINK project - Syngenta, Jealotts Hill, UK 2008 Hodgman TCVirtual Root
- Towards a Virtual Cell. At: Abingdon, UK Plenary talk 2008 Hodgman TCVirtual Root
- Unknown Presentation. At: Applied Bioinformatics and Public Health Microbiology meeting - Health Protection Agency Plenary talk 2008 Hodgman TCVirtual Root
- OCISB Launch meeting. At: OCISB - University of Oxford, UK Plenary talk 2008 Hodgman TCVirtual Root
POSTERS
- DRIVE-db. At: Annual Plant Biology Symposium at the University of Massachusetts Amherst 2011 2012 Michael Wilson, Andrew French, Darren Wells, Michael Stout, Charlie Hodgman, Tony PridmoreVirtual Root
- 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
- 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
- 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
- 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