EvoPPI: A Web Application to Compare Protein-Protein Interactions (PPIs) from Different Databases and Species
Biological processes are mediated by protein-protein interactions (PPI) that have been studied using different methodologies, and organized as centralized repositories - PPI databases. The data stored in the different PPI databases only overlaps partially. Moreover, some of the repositories are dedicated to a species or subset of species, not all have the same functionalities, or store data in the same format, making comparisons between different databases difficult to perform. Therefore, here we present EvoPPI (http://evoppi.i3s.up.pt), an open source web application tool that allows users to compare the protein interactions reported in two different interactomes. When interactomes belong to different species, a versatile BLAST search approach is used to identify orthologous/paralogous genes, which to our knowledge is a unique feature of EvoPPI.
KeywordsProtein-protein interactions databases Inter-specific comparisons Graphical view
Sara Rocha and this work are supported by the project Norte-01-0145-FEDER-000008 - Porto Neurosciences and Neurologic Disease Research Initiative at I3S, supported by Norte Portugal Regional Operational Programme (NORTE 2020), under the PORTUGAL 2020 Partnership Agreement, through the European Regional Development Fund (FEDER). H. López-Fernández is supported by a post-doctoral fellowship from Xunta de Galicia (ED481B 2016/068-0). SING group thanks CITI (Centro de Investigación, Transferencia e Innovación) from University of Vigo for hosting its IT infrastructure. Financial support from the Xunta de Galicia (Centro singular de investigación de Galicia accreditation 2016-2019) and the European Union (European Regional Development Fund - ERDF), is gratefully acknowledged.
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