Commit 01650852 authored by Ayse Berceste Dincer's avatar Ayse Berceste Dincer
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##### Paul G. Allen School of Computer Science & Engineering, University of Washington, Seattle
###### * Equal contribution
Although biological pathways are essential for interpreting results from computational biology studies, the growing number of pathway databases makes it difficult to perform pathway analysis. Our study seeks to reconcile pathways from different databases and reduce pathway redundancy by revealing informative groups with distinct biological functions. Uniquely applying the Louvain community detection algorithm to a network of 4,847 pathways from KEGG, REACTOME and Gene Ontology databases, we identify 35 distinct communities of pathways and show that these communities are consistent with expert-curated pathway categories. Further, we develop an algorithm to automatically annotate each community based on member pathways’ names. By learning informative categories, we progress towards a tool that computational biologists can use to more efficiently interpret their biological findings.
Although knowledge of biological pathways is essential for interpreting results from computational biology studies, the growing number of pathway databases complicates efforts to efficiently perform pathway analysis. Our study seeks to reconcile pathways from different databases and reduce pathway redundancy by revealing informative groups with distinct biological functions. Uniquely applying the Louvain community detection algorithm to a network of 4,847 pathways from KEGG, REACTOME and Gene Ontology databases, we identify 35 distinct communities of pathways and show that these communities are consistent with expert-curated pathway categories. Further, we develop an algorithm to automatically annotate each community based on member pathways’ names. By learning informative categories, we help computational biologists more efficiently interpret their biological findings and lay important groundwork for developing an interactive pathway community query tool to further enrich pathway analysis.
<img align="center" src="Concept_Figure.jpg" width="50%">.
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