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.

Details

Serval ID
serval:BIB_CFABEDE09323
Type
Article: article from journal or magazin.
Publication sub-type
Review (review): journal as complete as possible of one specific subject, written based on exhaustive analyses from published work.
Collection
Publications
Institution
Title
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.
Journal
Briefings in bioinformatics
Author(s)
Niarakis A., Kuiper M., Ostaszewski M., Malik Sheriff R.S., Casals-Casas C., Thieffry D., Freeman T.C., Thomas P., Touré V., Noël V., Stoll G., Saez-Rodriguez J., Naldi A., Oshurko E., Xenarios I., Soliman S., Chaouiya C., Helikar T., Calzone L.
ISSN
1477-4054 (Electronic)
ISSN-L
1467-5463
Publication state
Published
Issued date
22/03/2021
Peer-reviewed
Oui
Volume
22
Number
2
Pages
1848-1859
Language
english
Notes
Publication types: Journal Article
Publication Status: ppublish
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.
Keywords
annotation standards, biocuration, logical modelling, model reusability, reproducibility
Pubmed
Web of science
Create date
11/06/2021 18:42
Last modification date
19/12/2023 8:15
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