Parallelization of nullspace algorithm for the computation of metabolic pathways

DOI10.1016/j.parco.2011.04.002zbMath1226.92012OpenAlexW2031785499WikidataQ34068514 ScholiaQ34068514MaRDI QIDQ647302

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

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

Uses Software

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

Cites Work

• Reaction routes in biochemical reaction systems: algebraic properties, validated calculation procedure and example from nucleotide metabolism
• Generating all vertices of a polyhedron is hard
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