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Seminar

Friday, June 22nd, 2018
From 11h30 To 12h30
Centre de Recherche - Paris - Amphithéâtre Biologie du développement et cancer

Reactome Multi-Scale Pathway Visualisation

Reactome (https://reactome.org) [1] is a free, open-source, open-data, curated and

peer-reviewed knowledge base of biomolecular pathways, currently covering 2,106
Pathways; 10,712 protein coding genes; 11,302 reactions; 27,452 literature references
and 1,800 small molecules. Pathways are arranged in a hierarchical structure, allowing
the user to navigate from high level concepts like immune system to detailed pathway
diagrams showing biomolecular events like membrane transport or phosphorylation.
The Reactome curation strategy focuses on the annotation of “normal” pathways in
human. However, we increasingly annotate disease-specific pathway modifications,
grouped in three major classes: loss of function (typically metabolic disease
phenotypes), gain of function (typically cancer phenotypes), and host-pathogen
interactions.
Here, we present new developments in the multi-scale 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 (Fig 1). Repeated diagram elements like 'mitochondrion' or 'receptor' are freely
available as a library of graphic elements at https://reactome.org/icon-lib. Detailed
lower-level diagrams are now downloadable in editable PPTX format as sets of
interconnected objects, as well as in standard png format.
[1] Sidiropoulos K, Viteri G, Sevilla C, Jupe S, Webber M, Orlic-Milacic M, Jassal B,
May B, Shamovsky V, Duenas C, Rothfels K, Matthews L, Song H, Stein L, Haw R,
D'Eustachio P, Ping P, Hermjakob H, Fabregat A. Reactome enhanced pathway
visualization. Bioinformatics. 2017 Nov 1;33(21):3461-3467.
 

Speaker(s)

Henning HERMJAKOB

Molecular Systems services EMBL-EBI, Cambridge

Invited by

Inna KUPERSTEIN

Institut Curie

Contact

Inna KUPERSTEIN

Institut Curie

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