DINIES: Drug-target interaction network inference engine based on supervised analysis

Yoshihiro Yamanishi, Masaaki Kotera, Yuki Moriya, Ryusuke Sawada, Minoru Kanehisa, Susumu Goto

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63 Citations (Scopus)

Abstract

DINIES (drug-target interaction network inference engine based on supervised analysis) is a web server for predicting unknown drug-target interaction networks from various types of biological data (e.g. chemical structures, drug side effects, amino acid sequences and protein domains) in the framework of supervised network inference. The originality of DINIES lies in prediction with state-of-the-art machine learning methods, in the integration of heterogeneous biological data and in compatibility with the KEGG database. The DINIES server accepts any 'profiles' or precalculated similarity matrices (or 'kernels') of drugs and target proteins in tab-delimited file format. When a training data set is submitted to learn a predictive model, users can select either known interaction information in the KEGG DRUG database or their own interaction data. The user can also select an algorithm for supervised network inference, select various parameters in the method and specify weights for heterogeneous data integration. The server can provide integrative analyses with useful components in KEGG, such as biological pathways, functional hierarchy and human diseases. DINIES (http://www.genome.jp/tools/dinies/) is publicly available as one of the genome analysis tools in GenomeNet.

Original languageEnglish
Pages (from-to)W39-W45
JournalNucleic acids research
Volume42
Issue numberW1
DOIs
Publication statusPublished - Jul 1 2014

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All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Yamanishi, Y., Kotera, M., Moriya, Y., Sawada, R., Kanehisa, M., & Goto, S. (2014). DINIES: Drug-target interaction network inference engine based on supervised analysis. Nucleic acids research, 42(W1), W39-W45. https://doi.org/10.1093/nar/gku337