IntAct App: a Cytoscape application for molecular interaction network visualization and analysis

Eliot Ragueneau; Anjali Shrivastava; John H Morris; Noemi Del-Toro; Henning Hermjakob; Pablo Porras

doi:10.1093/bioinformatics/btab319

IntAct App: a Cytoscape application for molecular interaction network visualization and analysis

Bioinformatics. 2021 Oct 25;37(20):3684-3685. doi: 10.1093/bioinformatics/btab319.

Authors

Eliot Ragueneau¹, Anjali Shrivastava¹, John H Morris², Noemi Del-Toro¹, Henning Hermjakob¹, Pablo Porras¹

Affiliations

¹ European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK.
² Resource for Biocomputing, Visualization, and Informatics, Department of Pharmaceutical Chemistry, University of California, San Francisco, CA 94158 2517, USA.

Abstract

Summary: IntAct App is a Cytoscape 3 application that grants in-depth access to IntAct's molecular interaction data. It build networks where nodes are interacting molecules (mainly proteins, but also genes, RNA, chemicals…) and edges represent evidence of interaction. Users can query a network by providing its molecules, identified by different fields and optionally include all their interacting partners in the resulting network. The app offers three visualizations: one only displaying interactions, another representing every evidence and the last one emphasizing evidence where mutated versions of proteins were used. Users can also filter networks and click on nodes and edges to access all their related details. Finally, the application supports automation of its main features via Cytoscape commands.

Availability and implementation: Implementation available at https://apps.cytoscape.org/apps/intactapp, while the source code is available at https://github.com/EBI-IntAct/IntactApp.

Abstract

Grants and funding