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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: halstead md. 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.
Biophysical annotation and representation of CellML models.
Wimalaratne SM, Halstead MD, Lloyd CM, Crampin EJ, Nielsen PF. Wimalaratne SM, et al. Among authors: halstead md. Bioinformatics. 2009 Sep 1;25(17):2263-70. doi: 10.1093/bioinformatics/btp391. Epub 2009 Jun 29. Bioinformatics. 2009. PMID: 19564239
Toward a curated CellML model repository.
Nickerson D, Stevens C, Halstead M, Hunter P, Nielsen P. Nickerson D, et al. Conf Proc IEEE Eng Med Biol Soc. 2006;2006:4237-40. doi: 10.1109/IEMBS.2006.260202. Conf Proc IEEE Eng Med Biol Soc. 2006. PMID: 17947072
The CellML 1.1 Specification.
Cuellar A, Hedley W, Nelson M, Lloyd C, Halstead M, Bullivant D, Nickerson D, Hunter P, Nielsen P. Cuellar A, et al. J Integr Bioinform. 2015 Sep 4;12(2):259. doi: 10.2390/biecoll-jib-2015-259. J Integr Bioinform. 2015. PMID: 26528557
CellML: its future, present and past.
Lloyd CM, Halstead MD, Nielsen PF. Lloyd CM, et al. Among authors: halstead md. Prog Biophys Mol Biol. 2004 Jun-Jul;85(2-3):433-50. doi: 10.1016/j.pbiomolbio.2004.01.004. Prog Biophys Mol Biol. 2004. PMID: 15142756 Free article. Review.
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: halstead md. BMC Bioinformatics. 2011 Jan 14;12:22. doi: 10.1186/1471-2105-12-22. BMC Bioinformatics. 2011. PMID: 21235804 Free PMC article.
A method for visualizing CellML models.
Wimalaratne SM, Halstead MD, Lloyd CM, Cooling MT, Crampin EJ, Nielsen PF. Wimalaratne SM, et al. Among authors: halstead md. Bioinformatics. 2009 Nov 15;25(22):3012-9. doi: 10.1093/bioinformatics/btp495. Epub 2009 Aug 24. Bioinformatics. 2009. PMID: 19703920
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. BMC Bioinformatics. 2010 Apr 8;11:178. doi: 10.1186/1471-2105-11-178. BMC Bioinformatics. 2010. PMID: 20377909 Free PMC article.
Computational physiology and the Physiome Project.
Crampin EJ, Halstead M, Hunter P, Nielsen P, Noble D, Smith N, Tawhai M. Crampin EJ, et al. Exp Physiol. 2004 Jan;89(1):1-26. doi: 10.1113/expphysiol.2003.026740. Exp Physiol. 2004. PMID: 15109205 Free article. Review.
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