University of Dundee

'The Reactome pathway knowledgebase'

Event Date: 
Monday, August 14, 2017 - 13:00
Event Location: 
MSI - Small Lecture Theatre
Host: 
Professor Angus Lamond FRS FRSE FMedSci
Mr Alejandro Brenes Murillo
Event Speaker: 
Antonio Fabregat Mundo
Institution: 
European Bioinformatics Institute (EMBL-EBI)
Event Type: 
Seminar
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Reactome (http://reactome.org) is a free, open-source, curated and peer-reviewed knowledge base of biomolecular pathways that provides infrastructure and intuitive bioinformatics tools for search, visualisation, interpretation and analysis of pathways. Reactome provides molecular details of signal transduction, transport, DNA replication, metabolism and other cellular processes as an ordered network of molecular transformations—an extended version of a classic metabolic map, in a single consistent data model. Reactome functions both as an archive of biological processes and as a tool for discovering unexpected functional relationships in data such as gene expression pattern surveys or somatic mutation catalogues from tumour cells.
 
Over the last years we redeveloped major components of the Reactome web interface to improve usability, responsiveness, data visualization and reusability by third parties. A new pathway diagram viewer provides a faster, clearer interface and smooth zooming from the entire reaction network to the details of individual reactions. Tool performance for analysis of user datasets has been substantially improved, now generating detailed results for genome-wide expression datasets within seconds. The analysis module can now be accessed through a RESTFul interface, facilitating its inclusion in third party applications. A new overview module allows the visualization of analysis results on a genome-wide Reactome pathway hierarchy using a single screen page. The search interface provides auto-completion as well as a faceted search to narrow result lists efficiently.