Addressing barriers in comprehensiveness, accessibility, reusability, interoperability and reproducibility of computational models in systems biology. Issue 4 (8th June 2022)

• Record Type: Journal Article
• Authors: Niarakis, Anna; Waltemath, Dagmar; Glazier, James; Schreiber, Falk; Keating, Sarah M; Nickerson, David; Chaouiya, Claudine; Siegel, Anne; Noël, Vincent; Hermjakob, Henning; Helikar, Tomáš; Soliman, Sylvain; Calzone, Laurence
• Is Part Of: Briefings in bioinformatics. Volume 23:Issue 4(2022)
• Publication Date: 2022-06-08
• Subjects: computational modelling -- model annotations -- reproducibility -- systems biology -- community standards; Genetics -- Data processing -- Periodicals; Molecular biology -- Data processing -- Periodicals; Genomes -- Data processing -- Periodicals; 572.80285
• DOI: 10.1093/bib/bbac212
• Languages: English
• ISSNs: 1467-5463

Abstract

Abstract: Computational models are often employed in systems biology to study the dynamic behaviours of complex systems. With the rise in the number of computational models, finding ways to improve the reusability of these models and their ability to reproduce virtual experiments becomes critical. Correct and effective model annotation in community-supported and standardised formats is necessary for this improvement. Here, we present recent efforts toward a common framework for annotated, accessible, reproducible and interoperable computational models in biology, and discuss key challenges of the field.