Jonathan Cooper

24 papers A 1C 1Misc 1Journal 18Unranked 3
YearRankTypeTitle / Venue / Authors
2023 — conf
"A Switch Went off in my Whole Body": Lived Experiences of Fatigue and Post-Exertional Malaise in Long Covid.
CHI Extended Abstracts
Corina Sas, Yojana Lotankar, Rosalind Adam, Katherine J. Bradbury, Jonathan Cooper, Derek L. Hill, Veronica Martinez, Daniel Powell
2023 J jnl
CellML 2.0.1.
J. Integr. Bioinform.
Michael Clerx, Michael T. Cooling, Jonathan Cooper, Alan Garny, Keri R. Moyle, David P. Nickerson, Poul M. F. Nielsen, Hugh Sorby
2020 J jnl
CellML 2.0.
J. Integr. Bioinform.
Michael Clerx, Michael T. Cooling, Jonathan Cooper, Alan Garny, Keri R. Moyle, David P. Nickerson, Poul M. F. Nielsen, Hugh Sorby
2020 J jnl
Chaste: Cancer, Heart and Soft Tissue Environment.
J. Open Source Softw.
Fergus R. Cooper, Ruth E. Baker, Miguel O. Bernabeu, Rafel Bordas, Louise Bowler, Alfonso Bueno-Orovio, Helen M. Byrne, Valentina Carapella, Louie Cardone-Noott, Jonathan Cooper, Sara Dutta, Benjamin D. Evans, Alexander G. Fletcher, James A. Grogan, Wenxian Guo, Daniel G. Harvey, Maurice Hendrix, David Kay, Jochen Kursawe, Philip K. Maini, Beth McMillan, Gary R. Mirams, James M. Osborne, Pras Pathmanathan, Joe Pitt-Francis, Martin Robinson, Blanca Rodríguez, Raymond J. Spiteri, David Gavaghan
2019 J jnl
Fault-tolerant control for commercial aircraft with actuator faults and constraints.
J. Frankl. Inst.
Yishi Liu, Xiwang Dong, Zhang Ren, Jonathan Cooper
2018 J jnl
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3).
J. Integr. Bioinform.
Frank T. Bergmann, Jonathan Cooper, Matthias König, Ion I. Moraru, David P. Nickerson, Nicolas Le Novère, Brett G. Olivier, Sven Sahle, Lucian P. Smith, Dagmar Waltemath
2016 J jnl
Where next for the reproducibility agenda in computational biology?
BMC Syst. Biol.
Joanna Lewis, Charles E. Breeze, Jane Charlesworth, Oliver J. Maclaren, Jonathan Cooper
2015 J jnl
Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 2.
J. Integr. Bioinform.
Frank T. Bergmann, Jonathan Cooper, Nicolas Le Novère, David P. Nickerson, Dagmar Waltemath
2015 J jnl
Ten Simple Rules for a Successful Cross-Disciplinary Collaboration.
PLoS Comput. Biol.
Bernhard Knapp, Rémi Bardenet, Miguel O. Bernabeu, Rafel Bordas, Maria Bruna, Ben Calderhead, Jonathan Cooper, Alexander G. Fletcher, Derek Groen, Bram Kuijper, Joanna Lewis, Greg J. McInerny, Timo Minssen, James M. Osborne, Verena Paulitschke, Joe Pitt-Francis, Jelena Todoric, Christian A. Yates, David Gavaghan, Charlotte M. Deane
2014 J jnl
COMBINE archive and OMEX format: one file to share all information to reproduce a modeling project.
BMC Bioinform.
Frank T. Bergmann, Richard R. Adams, Stuart L. Moodie, Jonathan Cooper, Mihai Glont, Martin Golebiewski, Michael Hucka, Camille Laibe, Andrew K. Miller, David P. Nickerson, Brett G. Olivier, Nicolas Rodriguez, Herbert M. Sauro, Martin Scharm, Stian Soiland-Reyes, Dagmar Waltemath, Florent Yvon, Nicolas Le Novère
2014 J jnl
COMBINE archive: One File To Share Them All.
CoRR
Frank T. Bergmann, Richard Adams, Stuart L. Moodie, Jonathan Cooper, Mihai Glont, Martin Golebiewski, Michael Hucka, Camille Laibe, Andrew K. Miller, David P. Nickerson, Brett G. Olivier, Nicolas Rodriguez, Herbert M. Sauro, Martin Scharm, Stian Soiland-Reyes, Dagmar Waltemath, Florent Yvon, Nicolas Le Novère
2014 J jnl
Chaste: A case study of parallelisation of an open source finite-element solver with applications to computational cardiac electrophysiology simulation.
Int. J. High Perform. Comput. Appl.
Miguel O. Bernabeu, James Southern, Nicholas Wilson, Peter E. Strazdins, Jonathan Cooper, Joe Pitt-Francis
2014 J jnl
Ten Simple Rules for Effective Computational Research.
PLoS Comput. Biol.
James M. Osborne, Miguel O. Bernabeu, Maria Bruna, Ben Calderhead, Jonathan Cooper, Neil Dalchau, Sara-Jane Dunn, Alexander G. Fletcher, Robin Freeman, Derek Groen, Bernhard Knapp, Greg J. McInerny, Gary R. Mirams, Joe Pitt-Francis, Biswa Sengupta, David W. Wright, Christian A. Yates, David Gavaghan, Stephen Emmott, Charlotte M. Deane
2013 J jnl
Chaste: An Open Source C++ Library for Computational Physiology and Biology.
PLoS Comput. Biol.
Gary R. Mirams, Christopher J. Arthurs, Miguel O. Bernabeu, Rafel Bordas, Jonathan Cooper, Alberto Corrias, Yohan Davit, Sara-Jane Dunn, Alexander G. Fletcher, Daniel G. Harvey, Megan E. Marsh, James M. Osborne, Pras Pathmanathan, Joe Pitt-Francis, James Southern, Nejib Zemzemi, David Gavaghan
2013 Misc conf
Connecting Models to Data in Multiscale Multicellular Tissue Simulations.
ICCS
Jonathan Cooper, James M. Osborne
2011 J jnl
Minimum Information About a Simulation Experiment (MIASE).
PLoS Comput. Biol.
Dagmar Waltemath, Richard R. Adams, Daniel A. Beard, Frank T. Bergmann, Upinder S. Bhalla, Randall Britten, Vijayalakshmi Chelliah, Mike T. Cooling, Jonathan Cooper, Edmund J. Crampin, Alan Garny, Stefan Hoops, Michael Hucka, Peter J. Hunter, Edda Klipp, Camille Laibe, Andrew K. Miller, Ion I. Moraru, David P. Nickerson, Poul M. F. Nielsen, Macha Nikolski, Sven Sahle, Herbert M. Sauro, Henning Schmidt, Jacky L. Snoep, Dominic P. Tolle, Olaf Wolkenhauer, Nicolas Le Novère
2011 — conf
TumorML: Concept and requirements of an in silico cancer modelling markup language.
EMBC
David Johnson, Jonathan Cooper, Steve McKeever
2010 J jnl
A Posteriori Error Analysis for the Use of Lookup Tables in Cardiac Electrophysiology Simulations.
SIAM J. Sci. Comput.
Jonathan Cooper, Jonathan P. Whiteley, David J. Gavaghan
2010 J jnl
An overview of the CellML API and its implementation.
BMC Bioinform.
Andrew K. Miller, Justin Marsh, Adam Reeve, Alan Garny, Randall Britten, Matt D. B. Halstead, Jonathan Cooper, David P. Nickerson, Poul M. F. Nielsen
2009 J jnl
Chaste: A test-driven approach to software development for biological modelling.
Comput. Phys. Commun.
Joe Pitt-Francis, Pras Pathmanathan, Miguel O. Bernabeu, Rafel Bordas, Jonathan Cooper, Alexander G. Fletcher, Gary R. Mirams, Philip J. Murray, James M. Osborne, Alex Walter, S. Jonathan Chapman, Alan Garny, Ingeborg M. M. van Leeuwen, Philip K. Maini, Blanca Rodríguez, Sarah L. Waters, Jonathan P. Whiteley, Helen M. Byrne, David Gavaghan
2008 J jnl
A model-driven approach to automatic conversion of physical units.
Softw. Pract. Exp.
Jonathan Cooper, Steve McKeever
2007 A conf
Experience report: a Haskell interpreter for cellML.
ICFP
Jonathan Cooper, Steve McKeever
2006 C conf
On the application of partial evaluation to the optimisation of cardiac electrophysiological simulations.
PEPM
Jonathan Cooper, Steve McKeever, Alan Garny
1993 — conf
Engaging the Visitor: Relevance, Participation and Motivation in Hypermedia Design.
ICHIM
Jonathan Cooper