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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
Briefings in Bioinformatics ( IF 9.5 ) Pub Date : 2020-04-21 , DOI: 10.1093/bib/bbaa046 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
Briefings in Bioinformatics ( IF 9.5 ) Pub Date : 2020-04-21 , DOI: 10.1093/bib/bbaa046 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
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.
中文翻译:
为生物学中的逻辑模型的策展和注释制定最佳实践和标准的基础——[BC]2 2019 CoLoMoTo/SysMod 研讨会的亮点
生物数据的快速积累要求通过更系统的方法对其进行整合、分析和利用。从大量数据中生成新颖的相关假设仍然具有挑战性。长期以来,逻辑模型一直被用来回答有关监管网络动态行为的各种问题。随着已发布的逻辑模型数量的增加,迫切需要以社区支持的标准化格式进行系统模型注释、引用和管理。本文总结了作为 2019 [BC]2 会议的一部分组织的题为“生物学中计算模型的注释和管理”的会议的关键主题和未来方向。会议的目的是制定和推动逻辑模型标准化注释的计划,审查和连接来自不同社区的专家正在进行的各种项目,这些项目涉及分子生物学实体、相互作用、途径和模型的建模和注释。本文定义了逻辑模型注释和管理的路线图,包括最佳实践和最低标准要求的里程碑。
更新日期:2020-04-21
中文翻译:
为生物学中的逻辑模型的策展和注释制定最佳实践和标准的基础——[BC]2 2019 CoLoMoTo/SysMod 研讨会的亮点
生物数据的快速积累要求通过更系统的方法对其进行整合、分析和利用。从大量数据中生成新颖的相关假设仍然具有挑战性。长期以来,逻辑模型一直被用来回答有关监管网络动态行为的各种问题。随着已发布的逻辑模型数量的增加,迫切需要以社区支持的标准化格式进行系统模型注释、引用和管理。本文总结了作为 2019 [BC]2 会议的一部分组织的题为“生物学中计算模型的注释和管理”的会议的关键主题和未来方向。会议的目的是制定和推动逻辑模型标准化注释的计划,审查和连接来自不同社区的专家正在进行的各种项目,这些项目涉及分子生物学实体、相互作用、途径和模型的建模和注释。本文定义了逻辑模型注释和管理的路线图,包括最佳实践和最低标准要求的里程碑。