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Cooperative development of logical modelling standards and tools with CoLoMoTo

By Aurélien Naldi, Pedro T. Monteiro, Christoph Müssel, the Consortium for Logical Models and Tools, Hans A. Kestler, Denis Thieffry, Ioannis Xenarios, Julio Saez-Rodriguez, Tomas Helikar, Claudine Chaouiya

Posted 19 Oct 2014
bioRxiv DOI: 10.1101/010504 (published DOI: 10.1093/bioinformatics/btv013)

The identification of large regulatory and signalling networks involved in the control of crucial cellular processes calls for proper modelling approaches. Indeed, models can help elucidate properties of these networks, understand their behaviour, and provide (testable) predictions by performing in silico experiments. In this context, qualitative, logical frameworks have emerged as relevant approaches as demonstrated by a growing number of published models, along with new methodologies and software tools. This productive activity now requires a concerted effort to ensure model reusability and interoperability between tools. Here, we outline the logical modelling framework and present the most important achievements of the Consortium for Logical Models and Tools, along with future objectives. This open community welcomes contributions from all researchers interested in logical modelling or in related mathematical and computational developments.

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