Retinitis pigmentosa is a highly heterogenous disease with now over 200 known driver genes. With such high hetergeneity, RPGeNet, a web application tool, was created to help users find new potential driver genes of retinitis pigmentosa and help better visualize the complex interaction network of the retina. The interaction database is formed by the merger of self-curated BioGRID, STRING and text-mining (PPaxe) interaction data. The database is managed by neo4j, the graph's visual display is created by Cytoscape.js, and the web interface is implemented on a django framework.
Currently, RPGeNet counts with 276 driver genes, 18,542 total nodes (genes/proteins), and 1,218,032 total directed edges (interactions, defining 613,319 non-redundant edges), derived from 3,209,871 total evidences gathered from the three aforementioned sources. Further information is available on our data page and our published paper.
RPGeNet v2.0: expanding the universe of retinal disease gene interactions network.
R. Arenas-Galnares, S. Castillo-Lara, V. Toulis, D. Boloc, R. Gonzàlez-Duarte, G. Marfany, J.F. Abril.
Database, 2019, baz120. OPEN ACCESS
Distilling a Visual Network of Retinitis Pigmentosa Gene-Protein Interactions to Uncover New Disease Candidates.
Daniel Boloc, Sergio Castillo-Lara, Gemma Marfany, Roser Gonzàlez-Duarte and Josep F. Abril.
PLoS ONE, 2015, 10(8): e0135307. OPEN ACCESS