NDLI: Essential Latent Knowledge for Protein-Protein Interactions: Analysis by an Unsupervised Learning Approach

Content Provider	ACM Digital Library
Author	Mamitsuka, Hiroshi
Abstract	Protein-protein interactions play a number of central roles in many cellular functions, including DNA replication, transcription and translation, signal transduction, and metabolic pathways. A recent increase in the number of protein-protein interactions has made predicting unknown protein-protein interactions important for the understanding of living cells. However, the protein-protein interactions experimentally obtained so far are often incomplete and contradictory and, consequently, existing computational prediction methods have integrated evidence (latent knowledge of proteins) from different and more reliable sources. Analyzing the relationships between proteins and the latent knowledge is important to understanding the cellular processes. For this analysis, we propose a new probabilistic model for protein-protein interactions by considering the latent knowledge of proteins. We further present an efficient learning algorithm for this model, based on an EM algorithm. Experimental results have shown that in a supervised test setting, the proposed method outperformed five other competing methods by a statistically significant factor in all cases. Using the probability parameters of a trained model, we have further shown the latent knowledge that is essential to predicting protein-protein interactions. Overall, our experimental results confirm that our proposed model is especially effective for analyzing protein-protein interactions from a viewpoint of the latent knowledge of proteins.
Starting Page	119
Ending Page	130
Page Count	12
File Format	PDF
ISSN	15455963
DOI	10.1109/TCBB.2005.23
Volume Number	2
Issue Number	2
Journal	IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Language	English
Publisher	Association for Computing Machinery (ACM)
Publisher Date	2005-04-01
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Biology and genetics, machine learning, data mining, mining methods and algorithms.
Content Type	Text
Resource Type	Article
Subject	Genetics Biotechnology Applied Mathematics

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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