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Journal Articles
- 2019
[j25]James P. Gilbert
, Nicole Pearcy, Rupert Norman, Thomas Millat, Klaus Winzer, John R. King, Charlie Hodgman, Nigel P. Minton, Jamie Twycross:
Gsmodutils: a python based framework for test-driven genome scale metabolic model development. Bioinform. 35(18): 3397-3403 (2019)- 2017
- [j24]Jean-Louis Dinh, Etienne Farcot, Charlie Hodgman:
The logic of the floral transition: Reverse-engineering the switch controlling the identity of lateral organs. PLoS Comput. Biol. 13(9) (2017) - 2013
- [j23]Daniele Muraro, Ute Voß, Michael Wilson, Malcolm Bennett, Helen M. Byrne, Ive De Smet, Charlie Hodgman, John R. King:
Inference of the Genetic Network Regulating Lateral Root Initiation in Arabidopsis thaliana. IEEE ACM Trans. Comput. Biol. Bioinform. 10(1): 50-60 (2013) - 2012
- [j22]Jianyong Sun, Jonathan M. Garibaldi, Charlie Hodgman:
Parameter Estimation Using Metaheuristics in Systems Biology: A Comprehensive Review. IEEE ACM Trans. Comput. Biol. Bioinform. 9(1): 185-202 (2012) - 2011
- [j21]Artem Lysenko, Michael Defoin-Platel, Keywan Hassani-Pak, Jan Taubert, Charlie Hodgman, Christopher J. Rawlings, Mansoor A. S. Saqi:
Assessing the functional coherence of modules found in multiple-evidence networks from Arabidopsis. BMC Bioinform. 12: 203 (2011) - 2009
- [j20]Graham J. Hickman, Charlie Hodgman:
Inference of Gene Regulatory Networks Using Boolean-Network Inference Methods. J. Bioinform. Comput. Biol. 7(6): 1013-1029 (2009) - 2008
- [j19]Victor G. Levitsky, Elena V. Ignatieva, Eugenia Aman, Tatyana I. Merkulova, Nikolay A. Kolchanov, T. Charles Hodgman:
Genetic algorithm and optimized weight matrix application for peroxisome proliferator response elements recognition: Prerequisites of accuracy growth for wide genome research. Intell. Data Anal. 12(5): 513-526 (2008) - 2007
- [j18]Charlie Hodgman:
Integrative biology - the way forward. Briefings Bioinform. 8(4): 208-209 (2007) - [j17]Nikolay A. Kolchanov, Tatyana I. Merkulova, Elena V. Ignatieva, Elena A. Ananko, Dmitry Yu. Oshchepkov, Victor G. Levitsky, Gennady V. Vasiliev, Nataly V. Klimova, Vasily M. Merkulov, T. Charles Hodgman:
Combined experimental and computational approaches to study the regulatory elements in eukaryotic genes. Briefings Bioinform. 8(4): 266-274 (2007) - [j16]Victor G. Levitsky, Elena V. Ignatieva, Elena A. Ananko, Igor I. Turnaev, Tatyana I. Merkulova, Nikolay A. Kolchanov, T. Charles Hodgman:
Effective transcription factor binding site prediction using a combination of optimization, a genetic algorithm and discriminant analysis to capture distant interactions. BMC Bioinform. 8 (2007) - [j15]Alex Marshall, Sirisha Gollapudi, Jacquie de Silva, Charlie Hodgman:
A systems biology approach to modelling tea (Camellia sinensis). BMC Syst. Biol. 1(S-1): P13 (2007) - 2006
- [j14]T. Charles Hodgman, Y. Ugartechea-Chirino, G. Tansley, I. Dryden:
The implications for Bioinformatics of integration across physical scales. J. Integr. Bioinform. 3(2) (2006) - [j13]Zheng Rong Yang, Jonathan Dry, Rebecca Thomson, T. Charles Hodgman:
A bio-basis function neural network for protein peptide cleavage activity characterisation. Neural Networks 19(4): 401-407 (2006) - 2004
- [j12]Charlie Hodgman:
Editorial: The informatics of post-translational modification and its implications for systems biology. Briefings Bioinform. 5(2): 104-106 (2004) - [j11]Andrew B. Horne, T. Charles Hodgman, Hugh D. Spence, Andrew R. Dalby:
Constructing an enzyme-centric view of metabolism. Bioinform. 20(13): 2050-2055 (2004) - 2003
- [j10]Michael Hucka, Andrew Finney, Herbert M. Sauro, H. Bolouri, John C. Doyle, Hiroaki Kitano, Adam P. Arkin, Benjamin J. Bornstein, Dennis Bray, Athel Cornish-Bowden, Autumn A. Cuellar, Serge Dronov, Ernst Dieter Gilles, Martin Ginkel, Victoria Gor, Igor Goryanin, W. J. Hedley, T. Charles Hodgman, Jan-Hendrik S. Hofmeyr, Peter J. Hunter, Nick S. Juty, J. L. Kasberger, Andreas Kremling, Ursula Kummer, Nicolas Le Novère, Leslie M. Loew, D. Lucio, Pedro Mendes, E. Minch, Eric Mjolsness, Yoichi Nakayama, M. R. Nelson, Poul M. F. Nielsen, T. Sakurada, James C. Schaff, Bruce E. Shapiro, Thomas Simon Shimizu, Hugh D. Spence, Jörg Stelling, Koichi Takahashi, Masaru Tomita, J. Wagner, J. Wang:
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. Bioinform. 19(4): 524-531 (2003) - [j9]Rebecca Thomson, T. Charles Hodgman, Zheng Rong Yang, Austin K. Doyle:
Characterizing proteolytic cleavage site activity using bio-basis function neural networks. Bioinform. 19(14): 1741-1747 (2003) - 2001
- [j8]Nick S. Juty, Hugh D. Spence, Hans R. Hotz, Haizhou Tang, Igor Goryanin, T. Charles Hodgman:
Simultaneous Modelling of Metabolic, Genetic and Product-interaction Networks. Briefings Bioinform. 2(3): 223-232 (2001) - [j7]Nikolay A. Kolchanov, Charlie Hodgman:
The 2nd international conference on the Bioinformatics of Genome Regulation and Structure (BGRS-2000), Novosibirsk, August 2000. Bioinform. 17(11): 997 (2001) - 2000
- [j6]T. Charles Hodgman:
A historical perspective on gene/protein functional assignment. Bioinform. 16(1): 10-15 (2000) - 1999
- [j5]Igor Goryanin, T. Charles Hodgman, Evgeni Selkov:
Mathematical simulation and analysis of cellular metabolism and regulation. Bioinform. 15(9): 749-758 (1999) - 1998
- [j4]S. Taylor, T. Charles Hodgman, C. B. Littler, Roger A. Sayle, R. W. Gill, M. D. Oxer, C. H. O'Donnell, Andrew Lyall:
Automated management of gene discovery projects. Bioinform. 14(2): 217-218 (1998) - 1997
- [j3]R. W. Gill, T. Charles Hodgman, C. B. Littler, M. D. Oxer, D. S. Montgomery, S. Taylor, P. Sanseau:
A new dynamic tool to perform assembly of expressed sequence tags (ESTs). Comput. Appl. Biosci. 13(4): 453-457 (1997) - 1989
- [j2]T. Charles Hodgman:
The elucidation of protein function by sequence motif analysis. Comput. Appl. Biosci. 5(1): 1-13 (1989) - 1986
- [j1]T. Charles Hodgman:
The elucidation of protein function from its amino acid sequence. Comput. Appl. Biosci. 2(3): 181-187 (1986)
Conference and Workshop Papers
- 1999
- [c1]Karen Eilbeck, Andy Brass, Norman W. Paton, Charlie Hodgman:
INTERACT: An Object Oriented Protein-Protein Interaction Database. ISMB 1999: 87-94
Coauthor Index
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