Flux tope analysis: studying the coordination of reaction directions in metabolic networks | Zendy

Matthias P. Gerstl | Zendy; Stefan C. Müller | Zendy; Georg Regensburger | Zendy; Jürgen Zanghellini | Zendy

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Flux tope analysis: studying the coordination of reaction directions in metabolic networks

Author(s) -

Matthias P. Gerstl,

Stefan C. Müller,

Georg Regensburger,

Jürgen Zanghellini

Publication year - 2018

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bty550

Subject(s) - enumeration , flux balance analysis , metabolic network , flux (metallurgy) , computer science , hyperplane , set (abstract data type) , dimension (graph theory) , metabolic flux analysis , mathematical optimization , theoretical computer science , algorithm , mathematics , discrete mathematics , computational biology , combinatorics , biology , chemistry , organic chemistry , metabolism , programming language , endocrinology

Elementary flux mode (EFM) analysis allows an unbiased description of metabolic networks in terms of minimal pathways (involving a minimal set of reactions). To date, the enumeration of EFMs is impracticable in genome-scale metabolic models. In a complementary approach, we introduce the concept of a flux tope (FT), involving a maximal set of reactions (with fixed directions), which allows one to study the coordination of reaction directions in metabolic networks and opens a new way for EFM enumeration.

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