tEFMA: computing thermodynamically feasible elementary flux modes in metabolic networks

Metabolomics integrated elementary flux mode analysis in large metabolic networks

(2015) Matthias P. Gerstl et al.   Scientific Reports

Complete enumeration of elementary flux modes through scalable demand-based subnetwork definition

(2014) Kristopher A. Hunt et al.   BIOINFORMATICS

regEfmtool: Speeding up elementary flux mode calculation using transcriptional regulatory rules in the form of three-state logic

(2013) Christian Jungreuthmayer et al.   BIOSYSTEMS

Elementary flux modes in a nutshell: Properties, calculation and applications

(2013) Jürgen Zanghellini et al.   Biotechnology Journal

Random sampling of elementary flux modes in large-scale metabolic networks

(2012) Daniel Machado et al.   BIOINFORMATICS

System-Level Insights into Yeast Metabolism by Thermodynamic Analysis of Elementary Flux Modes

(2012) Stefan J. Jol et al.   PLoS Computational Biology

eQuilibrator--the biochemical thermodynamics calculator

(2011) A. Flamholz et al.   NUCLEIC ACIDS RESEARCH

Computing the shortest elementary flux modes in genome-scale metabolic networks

(2009) Luis F. de Figueiredo et al.   BIOINFORMATICS

Absolute metabolite concentrations and implied enzyme active site occupancy in Escherichia coli

(2009) Bryson D Bennett et al.   Nature Chemical Biology

Large-scale computation of elementary flux modes with bit pattern trees

(2008) Marco Terzer et al.   BIOINFORMATICS