Treffer: Semi-automated Modular Program Constructor for physiological modeling: Building cell and organ models.

Title:
Semi-automated Modular Program Constructor for physiological modeling: Building cell and organ models.
Authors:
Jardine B; Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA., Raymond GM; Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA., Bassingthwaighte JB; Department of Bioengineering, University of Washington, Seattle, WA, 98195, USA.
Source:
F1000Research [F1000Res] 2015 Dec 16; Vol. 4, pp. 1461. Date of Electronic Publication: 2015 Dec 16 (Print Publication: 2015).
Publication Type:
Journal Article
Language:
English
Journal Info:
Publisher: F1000 Research Ltd Country of Publication: England NLM ID: 101594320 Publication Model: eCollection Cited Medium: Print ISSN: 2046-1402 (Print) Linking ISSN: 20461402 NLM ISO Abbreviation: F1000Res Subsets: PubMed not MEDLINE
Imprint Name(s):
Original Publication: London : F1000 Research Ltd
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Contributed Indexing:
Keywords: JSim; multi-scale modeling; physiological modeling; reproducibility; systems biology; uncertainty quantification
Entry Date(s):
Date Created: 20170713 Latest Revision: 20191120
Update Code:
20250114
PubMed Central ID:
PMC5488124
DOI:
10.12688/f1000research.7476.1
PMID:
28698795
Database:
MEDLINE

Weitere Informationen

The Modular Program Constructor (MPC) is an open-source Java based utility, built upon JSim's Mathematical Modeling Language (MML) ( http://www.physiome.org/jsim/) that uses directives embedded in model code to construct larger, more complicated models quickly and with less error than manually combining models. A major obstacle in writing complex programs for modeling physiological processes is the large amount of time it takes to code the myriad processes taking place simultaneously in cells, tissues, and organs. MPC replaces this task by code-generating algorithms that take the code from several different modules and produce model code for a new JSim model. This is particularly useful during multi-scale model development where many variants are to be configured and tested against data. MPC is implemented in Java and requires JSim to use its output. MPC source code and documentation are available at http://www.physiome.org/software/MPC/.

Competing interests: The authors declared no competing interests.