RT Journal Article
SR Electronic
T1 Collective intelligence defines biological functions in Wikipedia as communities in the hidden protein connection network
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 618447
DO 10.1101/618447
A1 Andrei Zinovyev
A1 Urszula Czerwinska
A1 Laura Cantini
A1 Emmanuel Barillot
A1 Klaus M. Frahm
A1 Dima L. Shepelyansky
YR 2019
UL http://biorxiv.org/content/early/2019/04/25/618447.abstract
AB English Wikipedia, containing more than five millions articles, has approximately eleven thousands web pages devoted to proteins or genes most of which were generated by the Gene Wiki project. These pages contain information about interactions between proteins and their functional relationships. At the same time, they are interconnected with other Wikipedia pages describing biological functions, diseases, drugs and other topics curated by independent, not coordinated collective efforts. Therefore, Wikipedia contains a directed network of protein functional relations or physical interactions embedded into the global network of the encyclopedia terms, which defines hidden (indirect) functional proximity between proteins. We applied the recently developed reduced Google Matrix (REGOMAX) algorithm in order to extract the network of hidden functional connections between proteins in Wikipedia. In this network we discovered tight communities which reflect areas of interest in molecular biology or medicine. Moreover, by comparing two snapshots of Wikipedia graph (from years 2013 and 2017), we studied the evolution of the network of direct and hidden protein connections. We concluded that the hidden connections are more dynamic compared to the direct ones and that the size of the hidden interaction communities grows with time. We recapitulate the results of Wikipedia protein community analysis and annotation in the form of an interactive online map, which can serve as a portal to the Gene Wiki project.