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Briefings in Bioinformatics 2006 7(4):331-338; doi:10.1093/bib/bbl039
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© The Author 2006. Published by Oxford University Press. For Permissions, please email: journals.permissions@oxfordjournals.org

Representing, storing and accessing molecular interaction data: a review of models and tools

Lena Strömbäck, Vaida Jakoniene, He Tan and Patrick Lambrix

Corresponding author. Lena Strömbäck, Department of Computer and Information Science, Linköpings Universitet, Sweden. E-mail: lestr{at}ida.liu.se

One important aim within systems biology is to integrate disparate pieces of information, leading to discovery of higher-level knowledge about important functionality within living organisms. This makes standards for representation of data and technology for exchange and integration of data important key points for development within the area. In this article, we focus on the recent developments within the field. We compare the recent updates to the three standard representations for exchange of data SBML, PSI MI and BioPAX. In addition, we give an overview of available tools for these three standards and a discussion on how these developments support possibilities for data exchange and integration.

Keywords: molecular interactions, cellular pathways, standardization, SBML, PSI MI, BioPAX


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