{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T18:16:27Z","timestamp":1777572987340,"version":"3.51.4"},"reference-count":28,"publisher":"Oxford University Press (OUP)","issue":"18","license":[{"start":{"date-parts":[[2016,10,2]],"date-time":"2016-10-02T00:00:00Z","timestamp":1475366400000},"content-version":"vor","delay-in-days":1490,"URL":"http:\/\/creativecommons.org\/licenses\/by\/3.0"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2012,9,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Motivation: Drug effects are mainly caused by the interactions between drug molecules and their target proteins including primary targets and off-targets. Identification of the molecular mechanisms behind overall drug\u2013target interactions is crucial in the drug design process.<\/jats:p>\n               <jats:p>Results: We develop a classifier-based approach to identify chemogenomic features (the underlying associations between drug chemical substructures and protein domains) that are involved in drug\u2013target interaction networks. We propose a novel algorithm for extracting informative chemogenomic features by using L1 regularized classifiers over the tensor product space of possible drug\u2013target pairs. It is shown that the proposed method can extract a very limited number of chemogenomic features without loosing the performance of predicting drug\u2013target interactions and the extracted features are biologically meaningful. The extracted substructure\u2013domain association network enables us to suggest ligand chemical fragments specific for each protein domain and ligand core substructures important for a wide range of protein families.<\/jats:p>\n               <jats:p>Availability: Softwares are available at the supplemental website.<\/jats:p>\n               <jats:p>Contact: \u00a0yamanishi@bioreg.kyushu-u.ac.jp<\/jats:p>\n               <jats:p>Supplementary Information: Datasets and all results are available at http:\/\/cbio.ensmp.fr\/~yyamanishi\/l1binary\/ .<\/jats:p>","DOI":"10.1093\/bioinformatics\/bts412","type":"journal-article","created":{"date-parts":[[2012,9,7]],"date-time":"2012-09-07T20:35:22Z","timestamp":1347050122000},"page":"i487-i494","source":"Crossref","is-referenced-by-count":89,"title":["Identification of chemogenomic features from drug\u2013target interaction networks using interpretable classifiers"],"prefix":"10.1093","volume":"28","author":[{"given":"Yasuo","family":"Tabei","sequence":"first","affiliation":[{"name":"1 ERATO Minato Project, Japan Science and Technology Agency, Sapporo 060-0814, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Edouard","family":"Pauwels","sequence":"additional","affiliation":[{"name":"2 Mines ParisTech, Centre for Computational Biology, 35 rue Saint-Honore, F-77305 Fontainebleau Cedex, France"},{"name":"3 Institut Curie, F-75248 Paris, France"},{"name":"4 INSERM U900, F-75248 Paris, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"V\u00e9ronique","family":"Stoven","sequence":"additional","affiliation":[{"name":"2 Mines ParisTech, Centre for Computational Biology, 35 rue Saint-Honore, F-77305 Fontainebleau Cedex, France"},{"name":"3 Institut Curie, F-75248 Paris, France"},{"name":"4 INSERM U900, F-75248 Paris, France"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kazuhiro","family":"Takemoto","sequence":"additional","affiliation":[{"name":"5 Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, Kawazu 680-4, Iizuka, Fukuoka 820-8502, Japan"},{"name":"6 PRESTO, Japan Science and Technology Agency, Kawaguchi, Saitama 332-0012, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yoshihiro","family":"Yamanishi","sequence":"additional","affiliation":[{"name":"7 Division of System Cohort, Medical Institute of Bioregulation, Kyushu University, 3-1-1 Maidashi, Higashi-ku, Fukuoka, Fukuoka 812-8582, Japan"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2012,9,3]]},"reference":[{"key":"2023012513050426400_B1","first-page":"353","article-title":"Structure-activity relationships for in vitro and in vivo toxicity","volume":"41","author":"Blagg","year":"2006","journal-title":"Annu. 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