Version 1
: Received: 24 July 2020 / Approved: 25 July 2020 / Online: 25 July 2020 (18:24:10 CEST)
How to cite:
Touré, V.; Zobolas, J.; Kuiper, M.; Vercruysse, S. CausalBuilder: Bringing the MI2CAST Causal Interaction Annotation Standard to the Curator. Preprints2020, 2020070622. https://doi.org/10.20944/preprints202007.0622.v1
Touré, V.; Zobolas, J.; Kuiper, M.; Vercruysse, S. CausalBuilder: Bringing the MI2CAST Causal Interaction Annotation Standard to the Curator. Preprints 2020, 2020070622. https://doi.org/10.20944/preprints202007.0622.v1
Touré, V.; Zobolas, J.; Kuiper, M.; Vercruysse, S. CausalBuilder: Bringing the MI2CAST Causal Interaction Annotation Standard to the Curator. Preprints2020, 2020070622. https://doi.org/10.20944/preprints202007.0622.v1
APA Style
Touré, V., Zobolas, J., Kuiper, M., & Vercruysse, S. (2020). CausalBuilder: Bringing the MI2CAST Causal Interaction Annotation Standard to the Curator. Preprints. https://doi.org/10.20944/preprints202007.0622.v1
Chicago/Turabian Style
Touré, V., Martin Kuiper and Steven Vercruysse. 2020 "CausalBuilder: Bringing the MI2CAST Causal Interaction Annotation Standard to the Curator" Preprints. https://doi.org/10.20944/preprints202007.0622.v1
Abstract
Molecular causal interactions are defined as regulatory connections between biological components. They are commonly retrieved from biological experiments, and can be used for connecting biological molecules into regulatory computational models that represent biological systems. However, including a molecular causal interaction into a model requires assessing its relevance to that model, based on detailed knowledge about the biomolecules, interaction type, and biological context. In order to standardize the representation of this knowledge in ‘causal statements’, we recently developed the MI2CAST guidelines. Here we introduce causalBuilder: an intuitive web-based curation interface for the annotation of molecular causal interactions that comply with the MI2CAST standard. The causalBuilder prototype essentially embeds the MI2CAST curation guidelines in its interface, and makes its rules easy to follow by a curator. In addition, causalBuilder serves as an original application of the VSM general-purpose curation technology, and provides both curators and tool developers with an interface that can be fully configured to allow focusing on selected MI2CAST concepts to annotate. After information is entered, the causalBuilder prototype produces genuine causal statements that can be exported in different formats.
Keywords
causal statement; metadata; curation guidelines; curation web interface; VSM; MI2CAST
Subject
Computer Science and Mathematics, Mathematical and Computational Biology
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
