rBioNet: A COBRA toolbox extension for reconstructing high-quality biochemical networks

Stefan Gretar Thorleifsson; Ines Thiele

doi:10.1093/bioinformatics/btr308

rBioNet: A COBRA toolbox extension for reconstructing high-quality biochemical networks

Bioinformatics. 2011 Jul 15;27(14):2009-10. doi: 10.1093/bioinformatics/btr308. Epub 2011 May 19.

Authors

Stefan Gretar Thorleifsson¹, Ines Thiele

Affiliation

¹ Center for Systems Biology, Mechanical Engineering and Computer Science, University of Iceland, Reykjavik, Iceland.

PMID: 21596791
DOI: 10.1093/bioinformatics/btr308

Abstract

Motivation: Genome-scale metabolic networks are widely used in systems biology. However, to date no freely available tool exists that ensures quality control during the reconstruction process.

Results: Here, we present a COBRA toolbox extension, rBioNet, enabling the construction of publication-level biochemical networks while enforcing necessary quality control measures. rBioNet has an intuitive user interface facilitating the reconstruction process for novices and experts.

Availability: The rBioNet is freely available from http://opencobra.sourceforge.net.

Publication types

Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Chromosome Mapping
Databases as Topic
Genome
Metabolic Networks and Pathways*
Quality Control
Software*
Systems Biology