Parallelization of nullspace algorithm for the computation of metabolic pathways

DOI10.1016/J.PARCO.2011.04.002MaRDI QIDQ647302zbMATH OpenOpenAlexWikidataFDO

Authors Dimitrije Jevremović, Cong T. Trinh, Friedrich Srienc, Carlos P. Sosa, Daniel Boley

Publication date 22 November 2011

Published in Parallel Computing (Search for Journal in Brave)

Full work available at URL http://europepmc.org/articles/pmc3205353

zbMATH Keywords

elementary flux modebiochemical networknullspace algorithm

Mathematics Subject Classification ID

Parallel numerical computation (65Y05) Biochemistry, molecular biology (92C40) Probabilistic models, generic numerical methods in probability and statistics (65C20) Physiology (general) (92C30) Systems biology, networks (92C42) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)

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Cites work

• scientific article; zbMATH DE number 1944953 (Why is no real title available?)
• scientific article; zbMATH DE number 2005717 (Why is no real title available?)
• scientific article; zbMATH DE number 839542 (Why is no real title available?)
• Generating all vertices of a polyhedron is hard
• Introduction to algorithms
• Reaction routes in biochemical reaction systems: algebraic properties, validated calculation procedure and example from nucleotide metabolism

Describes a project that uses

Uses Software

• TNT
• JAMA
• Metatool
• BiGG
• FluxAnalyzer
• efmtool

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