David Phillip Nickerson

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Peter HunterDirector, Auckland Bioengineering Institute, University of AucklandVerified email at auckland.ac.nz
Poul NielsenProfessor, Engineering Science and Auckland Bioengineering Institute, University of AucklandVerified email at auckland.ac.nz
Dagmar WaltemathProfessor of Medical InformaticsVerified email at uni-greifswald.de
Alan GarnyAuckland Bioengineering Institute, University of AucklandVerified email at auckland.ac.nz
Michael HuckaGoogle Quantum AIVerified email at google.com
Martin GolebiewskiHITS gGmbH, Heidelberg (Germany)Verified email at h-its.org
Jonathan CooperUniversity College LondonVerified email at ucl.ac.uk
Falk SchreiberProfessor, University of Konstanz and Monash UniversityVerified email at uni-konstanz.de
Frank T. BergmannBioQUANT/COS, Heidelberg University, Heidelberg, GermanyVerified email at caltech.edu
Herbert M SauroUniversity of WashingtonVerified email at u.washington.edu
Chris MyersUniversity of UtahVerified email at ece.utah.edu
Martyn NashProfessor of Biomedical Engineering, University of Auckland.Verified email at auckland.ac.nz
Koray AtalagAuckland Bioengineering Institute, University of AucklandVerified email at auckland.ac.nz
Dr. Matthias KönigHumboldt-University BerlinVerified email at hu-berlin.de
Edmund J. CrampinProfessor, University of Melbourne, AustraliaVerified email at unimelb.edu.au
Nicolas SmithQueensland University of TechnologyVerified email at qut.edu.au
Sarah KeatingUCLVerified email at ucl.ac.uk
Brett G. OlivierVrije Universiteit AmsterdamVerified email at vu.nl
Anand K. RampadarathSenior Bioinformatics Engineer, New Zealand Institute of Plant and Food ResearchVerified email at plantandfood.co.nz
John H GennariBiomedical & Health Informatics, University of WashingtonVerified email at uw.edu

David Phillip Nickerson

Auckland Bioengineering Institute, University of Auckland

Verified email at auckland.ac.nz - Homepage

Physiome CellML Standards Computational Physiology SED-ML


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An overview of CellML 1.1, a biological model description language AA Cuellar, CM Lloyd, PF Nielsen, DP Bullivant, DP Nickerson, PJ Hunter Simulation 79 (12), 740-747, 2003	424	2003
Reproducible computational biology experiments with SED-ML-the simulation experiment description markup language D Waltemath, R Adams, FT Bergmann, M Hucka, F Kolpakov, AK Miller, ... BMC systems biology 5, 1-10, 2011	300	2011
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	173	2008
The physiome model repository 2 T Yu, CM Lloyd, DP Nickerson, MT Cooling, AK Miller, A Garny, ... Bioinformatics 27 (5), 743-744, 2011	171	2011
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	170	2011
Multiscale computational modelling of the heart NP Smith, DP Nickerson, EJ Crampin, PJ Hunter Acta Numerica 13, 371-431, 2004	166	2004
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, 1-9, 2014	161	2014
OpenCMISS: a multi-physics & multi-scale computational infrastructure for the VPH/Physiome project C Bradley, A Bowery, R Britten, V Budelmann, O Camara, R Christie, ... Progress in biophysics and molecular biology 107 (1), 32-47, 2011	157	2011
New developments in a strongly coupled cardiac electromechanical model D Nickerson, N Smith, P Hunter EP Europace 7 (s2), S118-S127, 2005	117	2005
An overview of the CellML API and its implementation AK Miller, J Marsh, A Reeve, A Garny, R Britten, M Halstead, J Cooper, ... BMC bioinformatics 11, 1-12, 2010	95	2010
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, 19, 2015	92	2015
CellML metadata standards, associated tools and repositories DA Beard, R Britten, MT Cooling, A Garny, MDB Halstead, PJ Hunter, ... Philosophical Transactions of the Royal Society A: Mathematical, Physical …, 2009	91	2009
Mathematical modelling of the heart: cell to organ NP Smith, PJ Mulquiney, MP Nash, CP Bradley, DP Nickerson, PJ Hunter Chaos, Solitons & Fractals 13 (8), 1613-1621, 2002	81	2002
A model of cardiac cellular electromechanics DP Nickerson, NP Smith, PJ Hunter Philosophical Transactions of the Royal Society of London. Series A …, 2001	81	2001
Harmonizing semantic annotations for computational models in biology ML Neal, M König, D Nickerson, G Mısırlı, R Kalbasi, A Dräger, K Atalag, ... Briefings in bioinformatics 20 (2), 540-550, 2019	72	2019
Community-driven roadmap for integrated disease maps M Ostaszewski, S Gebel, I Kuperstein, A Mazein, A Zinovyev, U Dogrusoz, ... Briefings in bioinformatics 20 (2), 659-670, 2019	66	2019
Modelling the passive and nerve activated response of the rectus femoris muscle to a flexion loading: a finite element framework JW Fernandez, ML Buist, DP Nickerson, PJ Hunter Medical engineering & physics 27 (10), 862-870, 2005	66	2005
Computational multiscale modeling in the IUPS physiome project: modeling cardiac electromechanics D Nickerson, M Nash, P Nielsen, N Smith, P Hunter IBM Journal of Research and Development 50 (6), 617-630, 2006	50	2006
The CellML 1.1 specification A Cuellar, W Hedley, M Nelson, C Lloyd, M Halstead, D Bullivant, ... Journal of Integrative Bioinformatics 12 (2), 4-85, 2015	41	2015
Specifications of standards in systems and synthetic biology: status and developments in 2020 F Schreiber, B Sommer, T Czauderna, M Golebiewski, TE Gorochowski, ... Journal of integrative bioinformatics 17 (2-3), 20200022, 2020	40	2020

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