Refining carbon flux paths using atomic trace data

Selection of human tissue-specific elementary flux modes using gene expression data

(2013) Alberto Rezola et al.   BIOINFORMATICS

A network-based approach for predicting key enzymes explaining metabolite abundance alterations in a disease phenotype

(2013) Jon Pey et al.   BMC Systems Biology

Accurate Atom-Mapping Computation for Biochemical Reactions

(2012) Mario Latendresse et al.   Journal of Chemical Information and Modeling

Integrating tracer-based metabolomics data and metabolic fluxes in a linear fashion via Elementary Carbon Modes

(2012) Jon Pey et al.   METABOLIC ENGINEERING

Construction of anE. Coligenome-scale atom mapping model for MFA calculations

(2011) Prabhasa Ravikirthi et al.   BIOTECHNOLOGY AND BIOENGINEERING

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Reactive Oxygen Species Production by Forward and Reverse Electron Fluxes in the Mitochondrial Respiratory Chain

(2011) Vitaly A. Selivanov et al.   PLoS Computational Biology

Path finding methods accounting for stoichiometry in metabolic networks

(2011) Jon Pey et al.   GENOME BIOLOGY

Exploring metabolic pathways in genome-scale networks via generating flux modes

(2010) A. Rezola et al.   BIOINFORMATICS

Finding metabolic pathways using atom tracking

(2010) Allison P. Heath et al.   BIOINFORMATICS

In response to ‘Can sugars be produced from fatty acids? A test case for pathway analysis tools’

(2009) Karoline Faust et al.   BIOINFORMATICS

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

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

Inferring branching pathways in genome-scale metabolic networks

(2009) Esa Pitkänen et al.   BMC Systems Biology

Can sugars be produced from fatty acids? A test case for pathway analysis tools

(2008) L. F. de Figueiredo et al.   BIOINFORMATICS

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

(2008) Marco Terzer et al.   BIOINFORMATICS

A critical examination of stoichiometric and path-finding approaches to metabolic pathways

(2008) F. J. Planes et al.   BRIEFINGS IN BIOINFORMATICS

EcoCyc: A comprehensive view of Escherichia coli biology

(2008) I. M. Keseler et al.   NUCLEIC ACIDS RESEARCH