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Bioinformatics Advance Access originally published online on May 19, 2005
Bioinformatics 2005 21(15):3329-3330; doi:10.1093/bioinformatics/bti502
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© The Author 2005. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions{at}oupjournals.org

MFAML: a standard data structure for representing and exchanging metabolic flux models

Hongseok Yun 1, Dong-Yup Lee 1,2, Joonwoo Jeong 1, Seunghyun Lee 1 and Sang Yup Lee 1,2,*

1Bioinformatics Research Center, Korea Advanced Institute of Science and Technology 373-1 Guseong-dong, Yuseong-gu, Daejeon 305-701, Korea
2Metabolic and Biomolecular Engineering National Research Laboratory, Department of Chemical and Biomolecular Engineering, Department of BioSystems, BioProcess Engineering Research Center, Korea Advanced Institute of Science and Technology 373-1 Guseong-dong, Yuseong-gu, Daejeon 305-701, Korea

*To whom correspondence should be addressed.

Summary: MFAML is a standard data structure designed for the formal representation and effective exchange of metabolic flux models. It allows for the explicit description of stationary states of a metabolic system by defining environmental/genetic conditions of the system, e.g. flux measurements, balancing constraints and physiological objectives as well as basic information on metabolites and reactions. In addition, a library of MFAML comprising a model parser and a converter provides an open framework for establishing the pipeline from metabolic modeling to metabolic flux analysis.

Availability: MFAML (version 1) is fully described and available at http://mbel.kaist.ac.kr/mfaml/

Contact:leesy{at}kaist.ac.kr

Received on April 1, 2005; revised on May 6, 2005; accepted on May 13, 2005

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