Setting the basis of best practices and standards for curation and annotation of logical models in biology

Anna Niarakis, Martin Kuiper, Marek Ostaszewski, Rahuman S Malik Sheriff, Cristina Casals-Casas, Denis Thieffry, Tom Freeman, Paul Thomas , Vasundra Toure, Vincent Noel, Gautier Stoll, Julio Saez-Rodriguez, Aurélien Naldi, Eugenia Oshurko, Ioannis Xenarios, Sylvain Soliman, Claudine Chaouiya , Tomás Helikar, Laurence Calzone

Research output: Contribution to journalArticlepeer-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 summarizes the key topics and future directions of a meeting entitled “Annotation and curation of computational models in biology”, organized as part of 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 modelling and annotation of molecular biological entities, interactions, pathways and models. This article defines a roadmap towards annotation and

Original languageEnglish
JournalBriefings in bioinformatics
DOIs
Publication statusPublished - 21 Apr 2020

Keywords

  • biocuration,
  • logical modelling
  • reproducibility
  • model reusability
  • annotation standards

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