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A computational interactome and functional annotation for the human proteome

Jose I. Garzon Canas; Lei Deng; Diana Murray; Sagi Shapira; Donald S. Petrey; Barry Honig

Title:
A computational interactome and functional annotation for the human proteome
Author(s):
Garzon Canas, Jose I.
Deng, Lei
Murray, Diana
Shapira, Sagi
Petrey, Donald S.
Honig, Barry
Date:
Type:
Articles
Department(s):
Systems Biology
Medicine
Microbiology and Immunology
Biochemistry and Molecular Biophysics
Volume:
5
Persistent URL:
Book/Journal Title:
eLife
Abstract:
We present a database, PrePPI (Predicting Protein-Protein Interactions), of more than 1.35 million predicted protein-protein interactions (PPIs). Of these at least 127,000 are expected to constitute direct physical interactions although the actual number may be much larger (~500,000). The current PrePPI, which contains predicted interactions for about 85% of the human proteome, is related to an earlier version but is based on additional sources of interaction evidence and is far larger in scope. The use of structural relationships allows PrePPI to infer numerous previously unreported interactions. PrePPI has been subjected to a series of validation tests including reproducing known interactions, recapitulating multi-protein complexes, analysis of disease associated SNPs, and identifying functional relationships between interacting proteins. We show, using Gene Set Enrichment Analysis (GSEA), that predicted interaction partners can be used to annotate a protein’s function. We provide annotations for most human proteins, including many annotated as having unknown function.
Subject(s):
Computational biology
Proteomics
Protein-protein interactions
Systems biology
Publisher DOI:
https://doi.org/10.7554/eLife.18715
Item views
21
Metadata:
text | xml
Suggested Citation:
Jose I. Garzon Canas, Lei Deng, Diana Murray, Sagi Shapira, Donald S. Petrey, Barry Honig, , A computational interactome and functional annotation for the human proteome, Columbia University Academic Commons, .

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