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Setting the basis of best practices and standards for curation and annotation of logical models in biology-highlights of the [BC]2 2019 CoLoMoTo/SysMod workshop

The fast accumulation of biological data calls for their integration, analysis and exploitation through more systematic approaches. The generation of novel, relevant hypotheses from this enormous quantity of data remains challenging. Logical models have long been used to answer a variety of question...

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Main Authors: Niarakis, Anna (Author) , Kuiper, Martin (Author) , Ostaszewski, Marek (Author) , Malik Sheriff, Rahuman S (Author) , Casals-Casas, Cristina (Author) , Thieffry, Denis (Author) , Freeman, Tom C (Author) , Thomas, Paul (Author) , Touré, Vasundra (Author) , Noël, Vincent (Author) , Stoll, Gautier (Author) , Sáez Rodríguez, Julio (Author) , Naldi, Aurélien (Author) , Oshurko, Eugenia (Author) , Xenarios, Ioannis (Author) , Soliman, Sylvain (Author) , Chaouiya, Claudine (Author) , Helikar, Tomáš (Author) , Calzone, Laurence (Author)
Format: Article (Journal)
Language:English
Published: 2021
In: Briefings in bioinformatics
Year: 2021, Volume: 22, Issue: 2, Pages: 1848-1859
ISSN:1477-4054
DOI:10.1093/bib/bbaa046
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1093/bib/bbaa046
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Author Notes:Anna Niarakis, Martin Kuiper, Marek Ostaszewski, Rahuman S Malik Sheriff, Cristina Casals-Casas, Denis Thieffry, Tom C Freeman, Paul Thomas, Vasundra Touré, Vincent Noël, Gautier Stoll, Julio Saez-Rodriguez, Aurélien Naldi, Eugenia Oshurko, Ioannis Xenarios, Sylvain Soliman, Claudine Chaouiya, Tomáš Helikar and Laurence Calzone
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Summary:The fast accumulation of biological data calls for their integration, analysis and exploitation through more systematic approaches. The generation of novel, relevant hypotheses from this enormous quantity of data remains challenging. Logical models have long been used to answer a variety of questions regarding the dynamical behaviours of regulatory networks. As the number of published logical models increases, there is a pressing need for systematic model annotation, referencing and curation in community-supported and standardised formats. This article summarises the key topics and future directions of a meeting entitled ‘Annotation and curation of computational models in biology’, organised as part of the 2019 [BC]2 conference. The purpose of the meeting was to develop and drive forward a plan towards the standardised annotation of logical models, review and connect various ongoing projects of experts from different communities involved in the modelling and annotation of molecular biological entities, interactions, pathways and models. This article defines a roadmap towards the annotation and curation of logical models, including milestones for best practices and minimum standard requirements.
Item Description:Gesehen am 26.08.2021
First published: 21 April 2020
Physical Description:Online Resource
ISSN:1477-4054
DOI:10.1093/bib/bbaa046

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