Reactome enhanced pathway visualization

Reactome is a free, open-source, open-data, curated and peer-reviewed knowledge base of biomolecular pathways. Pathways are arranged in a hierarchical structure that largely corresponds to the GO biological process hierarchy, allowing the user to navigate from high level concepts like immune system...

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Published in:Bioinformatics (Oxford, England) England), 2017-11, Vol.33 (21), p.3461-3467
Main Authors: Sidiropoulos, Konstantinos, Viteri, Guilherme, Sevilla, Cristoffer, Jupe, Steve, Webber, Marissa, Orlic-Milacic, Marija, Jassal, Bijay, May, Bruce, Shamovsky, Veronica, Duenas, Corina, Rothfels, Karen, Matthews, Lisa, Song, Heeyeon, Stein, Lincoln, Haw, Robin, D'Eustachio, Peter, Ping, Peipei, Hermjakob, Henning, Fabregat, Antonio
Format: Article
Language:English
Subjects:
Biological Phenomena
Computer Graphics
Gene Ontology
Internet
Knowledge Bases
Libraries
Original Papers
Signal Transduction
User-Computer Interface
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Summary:Reactome is a free, open-source, open-data, curated and peer-reviewed knowledge base of biomolecular pathways. Pathways are arranged in a hierarchical structure that largely corresponds to the GO biological process hierarchy, allowing the user to navigate from high level concepts like immune system to detailed pathway diagrams showing biomolecular events like membrane transport or phosphorylation. Here, we present new developments in the Reactome visualization system that facilitate navigation through the pathway hierarchy and enable efficient reuse of Reactome visualizations for users' own research presentations and publications. For the higher levels of the hierarchy, Reactome now provides scalable, interactive textbook-style diagrams in SVG format, which are also freely downloadable and editable. Repeated diagram elements like 'mitochondrion' or 'receptor' are available as a library of graphic elements. Detailed lower-level diagrams are now downloadable in editable PPTX format as sets of interconnected objects. http://reactome.org. fabregat@ebi.ac.uk or hhe@ebi.ac.uk.
ISSN:1367-4803
1367-4811
DOI:10.1093/bioinformatics/btx441