Precise generation of systems biology models from KEGG pathways

JSBML: a flexible Java library for working with SBML

(2011) Andreas Dräger et al.   BIOINFORMATICS

KEGGtranslator: visualizing and converting the KEGG PATHWAY database to various formats

(2011) Clemens Wrzodek et al.   BIOINFORMATICS

FASIMU: flexible software for flux-balance computation series in large metabolic networks

(2011) Andreas Hoppe et al.   BMC BIOINFORMATICS

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

The BioPAX community standard for pathway data sharing

(2010) Emek Demir et al.   NATURE BIOTECHNOLOGY

KEGGconverter: a tool for the in-silico modelling of metabolic networks of the KEGG Pathways database

(2009) Konstantinos Moutselos et al.   BMC BIOINFORMATICS

Presenting and exploring biological pathways with PathVisio

(2008) Martijn P van Iersel et al.   BMC BIOINFORMATICS

SBMLsqueezer: A CellDesigner plug-in to generate kinetic rate equations for biochemical networks

(2008) Andreas Dräger et al.   BMC Systems Biology

The PSI-MOD community standard for representation of protein modification data

(2008) Luisa Montecchi-Palazzi et al.   NATURE BIOTECHNOLOGY