| Standard virtual biological parts: a repository of modular modeling components for synthetic biology. | |
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MedLine Citation:
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PMID: 20160009 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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MOTIVATION: Fabrication of synthetic biological systems is greatly enhanced by incorporating engineering design principles and techniques such as computer-aided design. To this end, the ongoing standardization of biological parts presents an opportunity to develop libraries of standard virtual parts in the form of mathematical models that can be combined to inform system design. RESULTS: We present an online Repository, populated with a collection of standardized models that can readily be recombined to model different biological systems using the inherent modularity support of the CellML 1.1 model exchange format. The applicability of this approach is demonstrated by modeling gold-medal winning iGEM machines. Availability and Implementation: The Repository is available online as part of http://models.cellml.org. We hope to stimulate the worldwide community to reuse and extend the models therein, and contribute to the Repository of Standard Virtual Parts thus founded. Systems Model architecture information for the Systems Model described here, along with an additional example and a tutorial, is also available as Supplementary information. The example Systems Model from this manuscript can be found at http://models.cellml.org/workspace/bugbuster. The Template models used in the example can be found at http://models.cellml.org/workspace/SVP_Templates200906. |
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Authors:
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M T Cooling; V Rouilly; G Misirli; J Lawson; T Yu; J Hallinan; A Wipat |
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Publication Detail:
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Type: Journal Article; Research Support, Non-U.S. Gov't Date: 2010-02-16 |
Journal Detail:
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Title: Bioinformatics (Oxford, England) Volume: 26 ISSN: 1367-4811 ISO Abbreviation: Bioinformatics Publication Date: 2010 Apr |
Date Detail:
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Created Date: 2010-03-26 Completed Date: 2010-06-21 Revised Date: - |
Medline Journal Info:
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Nlm Unique ID: 9808944 Medline TA: Bioinformatics Country: England |
Other Details:
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Languages: eng Pagination: 925-31 Citation Subset: IM |
Affiliation:
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Auckland Bioengineering Institute, University of Auckland, Auckland, New Zealand. m.cooling@auckland.ac.nz |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Computational Biology
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methods* Databases, Factual Models, Biological* Promoter Regions, Genetic RNA, Messenger / metabolism |
| Chemical | |
Reg. No./Substance:
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0/RNA, Messenger |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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