A reappraisal of how to build modular, reusable models of biological systems

  [...]biological information from a new experiment may raise the importance of a variable hidden within a component. [...]it becomes difficult to anticipate what information in a component should be exposed or hidden by an interface.\n For example, while one annotator may refer to the concept "...

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Veröffentlicht in:PLoS computational biology 2014-10, Vol.10 (10), p.e1003849-e1003849
Hauptverfasser: Neal, Maxwell L, Cooling, Michael T, Smith, Lucian P, Thompson, Christopher T, Sauro, Herbert M, Carlson, Brian E, Cook, Daniel L, Gennari, John H
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Sprache:eng
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Zusammenfassung:  [...]biological information from a new experiment may raise the importance of a variable hidden within a component. [...]it becomes difficult to anticipate what information in a component should be exposed or hidden by an interface.\n For example, while one annotator may refer to the concept "D-glucose" from the ChEBI knowledge base [19], another may refer to the term "Glucose" from the Systematized Nomenclature of Medicine--Clinical Terms resource (SNOMED-CT [20]). [...]critical challenges for SAIM modeling include incentivizing model curators to annotate at this level of detail and developing intuitive software that minimizes annotation costs.
ISSN:1553-7358
1553-734X
1553-7358
DOI:10.1371/journal.pcbi.1003849