Jonathan Cooper
Jonathan Cooper
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Chaste: an open source C++ library for computational physiology and biology
G Mirams, C Arthurs, M Bernabeu, R Bordas, J Cooper, A Corrias, Y Davit, ...
PLoS Computational Biology, 2013
Chaste: a test-driven approach to software development for biological modelling
J Pitt-Francis, P Pathmanathan, MO Bernabeu, R Bordas, J Cooper, ...
Computer Physics Communications 180 (12), 2452-2471, 2009
Simulation of multiple ion channel block provides improved early prediction of compounds’ clinical torsadogenic risk
GR Mirams, Y Cui, A Sher, M Fink, J Cooper, BM Heath, NC McMahon, ...
Cardiovascular research 91 (1), 53-61, 2011
An integrative computational model for intestinal tissue renewal
IMM Van Leeuwen, GR Mirams, A Walter, A Fletcher, P Murray, J Osborne, ...
Cell proliferation 42 (5), 617-636, 2009
CellML and associated tools and techniques
A Garny, DP Nickerson, J Cooper, RW Santos, AK Miller, S McKeever, ...
Philosophical Transactions of the Royal Society A: Mathematical, Physical …, 2008
Minimum Information About a Simulation Experiment (MIASE)
D Waltemath, R Adams, DA Beard, FT Bergmann, US Bhalla, R Britten, ...
PLoS Computational Biology 7 (4), e1001122, 2011
Computational assessment of drug‐induced effects on the electrocardiogram: from ion channel to body surface potentials
N Zemzemi, MO Bernabeu, J Saiz, J Cooper, P Pathmanathan, ...
British Journal of Pharmacology 168 (3), 718-733, 2013
A computational study of discrete mechanical tissue models
P Pathmanathan, J Cooper, A Fletcher, G Mirams, P Murray, J Osborne, ...
Physical biology 6, 036001, 2009
Chaste: using agile programming techniques to develop computational biology software
J Pitt-Francis, MO Bernabeu, J Cooper, A Garny, L Momtahan, J Osborne, ...
Philosophical Transactions of the Royal Society A: Mathematical, Physical …, 2008
COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project
FT Bergmann, R Adams, S Moodie, J Cooper, M Glont, M Golebiewski, ...
BMC bioinformatics 15 (1), 369, 2014
A numerical guide to the solution of the bidomain equations of cardiac electrophysiology
P Pathmanathan, MO Bernabeu, R Bordas, J Cooper, A Garny, ...
Progress in biophysics and molecular biology 102 (2-3), 136-155, 2010
An overview of the CellML API and its implementation
A Miller, J Marsh, A Reeve, A Garny, R Britten, M Halstead, J Cooper, ...
BMC bioinformatics 11 (1), 178, 2010
High-throughput functional curation of cellular electrophysiology models
J Cooper, GR Mirams, SA Niederer
Progress in biophysics and molecular biology 107 (1), 11-20, 2011
Promoting coordinated development of community-based information standards for modeling in biology: the COMBINE initiative
M Hucka, DP Nickerson, GD Bader, FT Bergmann, J Cooper, E Demir, ...
Frontiers in Bioengineering and Biotechnology 3, 2015
A call for virtual experiments: accelerating the scientific process
J Cooper, JO Vik, D Waltemath
Progress in biophysics and molecular biology 117 (1), 99-106, 2015
The Cardiac Electrophysiology Web Lab
J Cooper, M Scharm, GR Mirams
Biophysical Journal 110 (2), 292-300, 2016
Ten simple rules for a successful cross-disciplinary collaboration
B Knapp, R Bardenet, MO Bernabeu, R Bordas, M Bruna, B Calderhead, ...
PLoS computational biology 11 (4), e1004214, 2015
Chaste: incorporating a novel multi-scale spatial and temporal algorithm into a large-scale open source library
MO Bernabeu, R Bordas, P Pathmanathan, J Pitt-Francis, J Cooper, ...
Philosophical Transactions of the Royal Society A: Mathematical, Physical …, 2009
Ten simple rules for effective computational research
JM Osborne, MO Bernabeu, M Bruna, B Calderhead, J Cooper, ...
PLoS Comput Biol 10 (3), e1003506, 2014
On the application of partial evaluation to the optimisation of cardiac electrophysiological simulations
J Cooper, S McKeever, A Garny
Proceedings of the 2006 ACM SIGPLAN symposium on Partial evaluation and …, 2006
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