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

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, Laurence Calzone

Research output: Contribution to journalReview articlepeer-review

Abstract

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.

Original languageEnglish (US)
Pages (from-to)1848-1859
Number of pages12
JournalBriefings in bioinformatics
Volume22
Issue number2
DOIs
StatePublished - Mar 1 2021

Keywords

  • Annotation standards
  • Biocuration
  • Logical modelling
  • Model reusability
  • Reproducibility

ASJC Scopus subject areas

  • Information Systems
  • Molecular Biology

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