Cooperative development of logical modelling standards and tools with CoLoMoTo

• Published in: Bioinformatics Vol. 31; no. 7; pp. 1154 - 1159
• Main Authors: Naldi, Aurélien, Monteiro, Pedro T, Müssel, Christoph, Kestler, Hans A, Thieffry, Denis, Xenarios, Ioannis, Saez-Rodriguez, Julio, Helikar, Tomas, Chaouiya, Claudine
• Format: Journal Article
• Language: English
• Published: England 01.04.2015
• Subjects: Animals; Bioinformatics; Cells - metabolism; Computer programs; Computer Simulation; Consortia; Humans; Mathematical analysis; Mathematical models; Metabolic Networks and Pathways; Modelling; Models, Theoretical; Societies, Scientific; Software - standards; Systems Biology - methods
• ISSN: 1367-4803; 1367-4811; 1460-2059
• 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. Following an outline of the logical modelling framework, we present the most important achievements of the Consortium for Logical Models and Tools, along with future objectives. Our aim is to advertise this open community, which welcomes contributions from all researchers interested in logical modelling or in related mathematical and computational developments.