期刊
NATURE METHODS
卷 12, 期 1, 页码 79-84出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/NMETH.3178
关键词
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资金
- Genome Canada via the Ontario Genomics Institute, Ontario Research Fund [GL2-01-030, RE-03-020]
- Canadian Institutes for Health Research [99745]
- Natural Sciences Research Council [203475]
- NATIONAL CANCER INSTITUTE [P01CA099031, R21CA126700] Funding Source: NIH RePORTER
- NATIONAL HUMAN GENOME RESEARCH INSTITUTE [R01HG001715] Funding Source: NIH RePORTER
- Associazione Italiana per la Ricerca sul Cancro Funding Source: Custom
Protein-protein interactions (PPIs) are useful for understanding signaling cascades, predicting protein function, associating proteins with disease and fathoming drug mechanism of action. Currently, only similar to 10% of human PPIs may be known, and about one-third of human proteins have no known interactions. We introduce Fp Class, a data mining-based method for proteome-wide PPI prediction. At an estimated false discovery rate of 60%, we predicted 250,498 PPIs among 10,531 human proteins; 10,647 PPIs involved 1,089 proteins without known interactions. We experimentally tested 233 high-and medium-confidence predictions and validated 137 interactions, including seven novel putative interactors of the tumor suppressor p53. Compared to previous PPI prediction methods, Fp Class achieved better agreement with experimentally detected PPIs. We provide an online database of annotated PPI predictions (http://ophid.utoronto.ca/fpclass/) and the prediction software (http://www.cs.utoronto.ca/-juris/ data/fpclass/).
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