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IEEE Trans Biomed Eng. 2016 Oct;63(10):2007-14. doi: 10.1109/TBME.2016.2560762. Epub 2016 Jun 10.

Toward Community Standards and Software for Whole-Cell Modeling.

Abstract

OBJECTIVE:

Whole-cell (WC) modeling is a promising tool for biological research, bioengineering, and medicine. However, substantial work remains to create accurate comprehensive models of complex cells.

METHODS:

We organized the 2015 Whole-Cell Modeling Summer School to teach WC modeling and evaluate the need for new WC modeling standards and software by recoding a recently published WC model in the Systems Biology Markup Language.

RESULTS:

Our analysis revealed several challenges to representing WC models using the current standards.

CONCLUSION:

We, therefore, propose several new WC modeling standards, software, and databases.

SIGNIFICANCE:

We anticipate that these new standards and software will enable more comprehensive models.

PMID:
27305665
PMCID:
PMC5451320
DOI:
10.1109/TBME.2016.2560762
[Indexed for MEDLINE]
Free PMC Article

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