Functional Equivalency Inferred from “Authoritative Sources” in Networks of Homologous Proteins

Shreedhar Natarajan and Eric Jakobsson

PLOS ONE, 2009, vol. 4, issue 6, 1-13

Abstract: A one-on-one mapping of protein functionality across different species is a critical component of comparative analysis. This paper presents a heuristic algorithm for discovering the Most Likely Functional Counterparts (MoLFunCs) of a protein, based on simple concepts from network theory. A key feature of our algorithm is utilization of the user's knowledge to assign high confidence to selected functional identification. We show use of the algorithm to retrieve functional equivalents for 7 membrane proteins, from an exploration of almost 40 genomes form multiple online resources. We verify the functional equivalency of our dataset through a series of tests that include sequence, structure and function comparisons. Comparison is made to the OMA methodology, which also identifies one-on-one mapping between proteins from different species. Based on that comparison, we believe that incorporation of user's knowledge as a key aspect of the technique adds value to purely statistical formal methods.

Date: 2009
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0005898

DOI: 10.1371/journal.pone.0005898

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