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I served as a professor of Computer Engineering at the Middle East Technical University<\/a>\u00a0(METU), Ankara, Turkey. RECENT SELECTED PUBLICATIONS<\/strong><\/span><\/p>\n list of all publicat<\/a>ions<\/a> SOFTWARE MDeePred <\/strong>[GitHub<\/a>] pairwise input deep neural network regressor for drug-target affinity prediction for virtual screening Other tools and services<\/p>\n PROJECTS<\/strong><\/span><\/p>\n CROssBAR<\/strong> \u00a0\u00a0 [WebPage<\/a>]\u00a0\u00a0\u00a0 SmartHome Consortium More about research<\/a><\/p>\n CURRENT GRADUATE STUDENTS<\/strong><\/span><\/p>\n Alumni<\/a><\/p>\n EDUCATION<\/strong><\/span><\/p>\n Dipl\u00f4me de Docteur <\/strong>dans la sp\u00e9cialit\u00e9 Informatique (Ph.D. in Computer Science), 1993, Universit\u00e9 Paris Descartes (Paris V)<\/em>, Paris, France PROFESSIONAL POSITIONS<\/strong><\/span><\/p>\n Professor<\/strong>, METU<\/em>, Ankara, Turkey, 2005-2023 MAJOR ADMINISTRATIONAL POSITIONS<\/strong><\/span><\/p>\n Vice President <\/strong>for research, METU<\/em>, 2010-2016 TEACHING<\/strong><\/span><\/p>\n CONSULTANCY<\/strong><\/span><\/p>\n CONTACT vatalay AT metu.edu.tr<\/span><\/strong><\/span><\/p>\n\n\n <\/p>\n","protected":false},"excerpt":{"rendered":" I served as a professor of Computer Engineering at the Middle East Technical University\u00a0(METU), Ankara, Turkey.My research interests lie in the areas of\u00a0– machine learning for bioinformatics,\u00a0– data stream analysis and clustering, and\u00a0– machine learning applications. RECENT SELECTED PUBLICATIONS CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations Nucleic Acids Research 49:e96 [article][WebPage][WebService] MDeePred: […]<\/p>\n","protected":false},"author":1875,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-7","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/pages\/7","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/users\/1875"}],"replies":[{"embeddable":true,"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/comments?post=7"}],"version-history":[{"count":0,"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/pages\/7\/revisions"}],"wp:attachment":[{"href":"https:\/\/blog.metu.edu.tr\/vatalay\/wp-json\/wp\/v2\/media?parent=7"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}
My research interests lie in the areas of
\u00a0– machine learning for bioinformatics,
\u00a0– data stream analysis and clustering, and
\u00a0– machine learning applications.<\/p>\n\n
Nucleic Acids Research <\/em>49:e96 [article<\/a>][WebPage<\/a>][WebService<\/a>]<\/li>\n
Bioinformatics<\/em> 37:693-704 \u00a0 [article]<\/a> [GitHub]<\/a><\/li>\n
Artificial Intelligence Review<\/em> 54:1201\u20131236\u00a0\u00a0 [article<\/a>]<\/li>\n
Bioinformatics<\/em> 36:4227\u20134230 \u00a0 [article<\/a>] [WebService<\/a>]<\/li>\n
Chemical Science<\/em> 11:2531-2557 [article<\/a>][GitHub<\/a>]<\/li>\n<\/ul>\n
Google Scholar<\/a><\/p>\n
<\/span><\/strong><\/p>\n
CROssBAR<\/strong> [WebService<\/a>] Comprehensive Resource of Biomedical Relations with Deep Learning and Knowledge Graph Representations
iBioProVis<\/strong> [WebService<\/a>] visualization of compounds on 2D space in the context of their cognate targets
DEEPScreen<\/strong> [GitHub<\/a>] virtual screening with deep convolutional neural networks using compound images
DEEPred<\/strong> \u00a0[GitHub<\/a>] automated function prediction
ECPred\u00a0<\/strong> [WebService<\/a>][GitHub<\/a>] Enzyme Commission (EC) number prediction<\/p>\n
we developed a comprehensive computational resource by linking various biomedical resources, generating relation predictions using machine\/deep learning, and developing information-rich knowledge graphs that incorporate available and predicted biomedical relationships with the aim of providing aid to biomedical researchers to further understand disease mechanisms and to discover\/develop new drugs<\/p>\n
<\/strong>A consortium of 18 companies and 5 universities lead by Arcelik\/BEKO to develop and implement a platform for smart homes. We are interested in data stream analytics and data stream clustering. We have developed a data stream clustering algorithm using UMAP to detect and adopt concept drifts that are changes in data.<\/p>\n\n
Dipl\u00f4me d\u2019Etudes Approfondies <\/strong>en Informatique, 1991, Universit\u00e9 Paris Descartes (Paris V)<\/em>, Paris, France
Master of Science <\/strong>in Electrical and Electronics Engineering, 1990, METU<\/em>, Ankara, Turkey
Bachelor of Science <\/strong>in Electrical and Electronics Engineering, 1987, METU<\/em>, Ankara, Turkey<\/p>\n
Associate Professor<\/strong>, METU<\/em>, Ankara, Turkey, 1998-2005
Visiting Research Associate Professor<\/strong>, Virginia Bioinformatics Institute<\/em>, Virginia Tech<\/em>, VA, USA, Jan. 2004-Jan. 2005
Assistant Professor<\/strong>, METU<\/em>, Ankara, Turkey, 1993-1998
Instructor<\/strong>, Universit\u00e9 Paris Descartes (Paris V)<\/em>, Paris, France, 1993
Visiting Scholar<\/strong>, New Jersey Institute of Technology<\/em>, NJ, USA, 1991-1992<\/p>\n
Chairman of Board<\/strong>, ODT\u00dc TEKNOKENT<\/em> (METU Technopolis)<\/em>, 2010-2016
Member of University Senate<\/strong>, METU<\/em>, 2010-2016
Assistant to President<\/strong>, METU<\/em>, 2008-2010
Board Member<\/strong>, Informatics Association of Turkey<\/em>, 2009-2011
Department Chairperson<\/strong>, METU Dep. of Computer Eng<\/em>., 2007-2008<\/p>\n\n
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