STRING v9.1: protein-protein interaction networks, with increased coverage and integration

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

Published online 29 November 2012 | Andrea Franceschini1, Damian Szklarczyk2, Sune Frankild2, Michael Kuhn3, Milan Simonovic1, Alexander Roth1, Jianyi Lin4, Pablo Minguez5, Peer Bork5,6,* Christian von Mering1,* and Lars J. Jensen2,*
The article introduces the updated version 9.1 of the STRING database, which aims to provide a comprehensive view of protein-protein interactions for over 1100 organisms. Key improvements include enhanced text mining capabilities, a redesigned algorithm for transferring interactions between organisms, and statistical enrichment analysis for user-supplied protein lists. The text mining pipeline has been improved to handle full-text articles and orthologous groups more effectively, while the interaction transfer algorithm now leverages hierarchical orthologous groups from the eggNOG database. Additionally, STRING now offers statistical enrichment analysis for various functional annotation spaces, allowing users to identify statistically significant biological functions or pathways within their protein networks. These enhancements make STRING a more robust and user-friendly resource for studying protein interactions and their functional implications.The article introduces the updated version 9.1 of the STRING database, which aims to provide a comprehensive view of protein-protein interactions for over 1100 organisms. Key improvements include enhanced text mining capabilities, a redesigned algorithm for transferring interactions between organisms, and statistical enrichment analysis for user-supplied protein lists. The text mining pipeline has been improved to handle full-text articles and orthologous groups more effectively, while the interaction transfer algorithm now leverages hierarchical orthologous groups from the eggNOG database. Additionally, STRING now offers statistical enrichment analysis for various functional annotation spaces, allowing users to identify statistically significant biological functions or pathways within their protein networks. These enhancements make STRING a more robust and user-friendly resource for studying protein interactions and their functional implications.
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[slides and audio] STRING v9.1%3A protein-protein interaction networks%2C with increased coverage and integration