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eSolv, a CellML-based simulation front-end for online teaching.
de Boer TP, van der Werf S, Hennekam B, Nickerson DP, Garny A, Gerbrands M, Bouwmeester RAM, Rozendal AP, Torfs E, van Rijen HVM. de Boer TP, et al. Among authors: nickerson dp. Adv Physiol Educ. 2017 Sep 1;41(3):425-427. doi: 10.1152/advan.00127.2016. Adv Physiol Educ. 2017. PMID: 28679581 Free article. No abstract available.
CellML and associated tools and techniques.
Garny A, Nickerson DP, Cooper J, Weber dos Santos R, Miller AK, McKeever S, Nielsen PM, Hunter PJ. Garny A, et al. Among authors: nickerson dp. Philos Trans A Math Phys Eng Sci. 2008 Sep 13;366(1878):3017-43. doi: 10.1098/rsta.2008.0094. Philos Trans A Math Phys Eng Sci. 2008. PMID: 18579471 Review.
CellML metadata standards, associated tools and repositories.
Beard DA, Britten R, Cooling MT, Garny A, Halstead MD, Hunter PJ, Lawson J, Lloyd CM, Marsh J, Miller A, Nickerson DP, Nielsen PM, Nomura T, Subramanium S, Wimalaratne SM, Yu T. Beard DA, et al. Among authors: nickerson dp. Philos Trans A Math Phys Eng Sci. 2009 May 28;367(1895):1845-67. doi: 10.1098/rsta.2008.0310. Philos Trans A Math Phys Eng Sci. 2009. PMID: 19380315 Free PMC article.
An overview of the CellML API and its implementation.
Miller AK, Marsh J, Reeve A, Garny A, Britten R, Halstead M, Cooper J, Nickerson DP, Nielsen PF. Miller AK, et al. Among authors: nickerson dp. BMC Bioinformatics. 2010 Apr 8;11:178. doi: 10.1186/1471-2105-11-178. BMC Bioinformatics. 2010. PMID: 20377909 Free PMC article.
The Physiome Model Repository 2.
Yu T, Lloyd CM, Nickerson DP, Cooling MT, Miller AK, Garny A, Terkildsen JR, Lawson J, Britten RD, Hunter PJ, Nielsen PM. Yu T, et al. Among authors: nickerson dp. Bioinformatics. 2011 Mar 1;27(5):743-4. doi: 10.1093/bioinformatics/btq723. Epub 2011 Jan 6. Bioinformatics. 2011. PMID: 21216774
Revision history aware repositories of computational models of biological systems.
Miller AK, Yu T, Britten R, Cooling MT, Lawson J, Cowan D, Garny A, Halstead MD, Hunter PJ, Nickerson DP, Nunns G, Wimalaratne SM, Nielsen PM. Miller AK, et al. Among authors: nickerson dp. BMC Bioinformatics. 2011 Jan 14;12:22. doi: 10.1186/1471-2105-12-22. BMC Bioinformatics. 2011. PMID: 21235804 Free PMC article.
Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative.
Hucka M, Nickerson DP, Bader GD, Bergmann FT, Cooper J, Demir E, Garny A, Golebiewski M, Myers CJ, Schreiber F, Waltemath D, Le Novère N. Hucka M, et al. Among authors: nickerson dp. Front Bioeng Biotechnol. 2015 Feb 24;3:19. doi: 10.3389/fbioe.2015.00019. eCollection 2015. Front Bioeng Biotechnol. 2015. PMID: 25759811 Free PMC article. Review.
Modular modelling with Physiome standards.
Cooling MT, Nickerson DP, Nielsen PM, Hunter PJ. Cooling MT, et al. Among authors: nickerson dp. J Physiol. 2016 Dec 1;594(23):6817-6831. doi: 10.1113/JP272633. Epub 2016 Aug 29. J Physiol. 2016. PMID: 27353233 Free PMC article.
Harmonizing semantic annotations for computational models in biology.
Neal ML, König M, Nickerson D, Mısırlı G, Kalbasi R, Dräger A, Atalag K, Chelliah V, Cooling MT, Cook DL, Crook S, de Alba M, Friedman SH, Garny A, Gennari JH, Gleeson P, Golebiewski M, Hucka M, Juty N, Myers C, Olivier BG, Sauro HM, Scharm M, Snoep JL, Touré V, Wipat A, Wolkenhauer O, Waltemath D. Neal ML, et al. Brief Bioinform. 2019 Mar 22;20(2):540-550. doi: 10.1093/bib/bby087. Brief Bioinform. 2019. PMID: 30462164 Free PMC article. Review.
90 results