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Prediction of Compound-protein Interactions with Machine Learning Methods

Prediction of Compound-protein Interactions with Machine Learning Methods
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Author(s): Yoshihiro Yamanishi (Mines ParisTech, Institut Curie, Inserm U900, France)and Hisashi Kashima (IBM Tokyo Research Laboratory, Japan)
Copyright: 2012
Pages: 15
Source title: Machine Learning: Concepts, Methodologies, Tools and Applications
Source Author(s)/Editor(s): Information Resources Management Association (USA)
DOI: 10.4018/978-1-60960-818-7.ch315

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Abstract

In silico prediction of compound-protein interactions from heterogeneous biological data is critical in the process of drug development. In this chapter the authors review several supervised machine learning methods to predict unknown compound-protein interactions from chemical structure and genomic sequence information simultaneously. The authors review several kernel-based algorithms from two different viewpoints: binary classification and dimension reduction. In the results, they demonstrate the usefulness of the methods on the prediction of drug-target interactions and ligand-protein interactions from chemical structure data and genomic sequence data.

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