Ph.D. Candidate, Research Assistant at CLAIR (Computational Linguistics And Information Retrieval) research group, Department of Electrical Engineering and Computer Science University of Michigan Ann Arbor, Michigan, USA E-Mail: ozgurumich.edu

Education

University of Michigan, Ann Arbor, Michigan, USA
    Ph.D. Student, Electrical Engineering and Computer Science                                                                      2006 - present

Bogazici University, Istanbul, Turkey
    M.S., Computer Engineering                                                                                                                       2002 - 2004
    B.S., Computer Engineering                                                                                                                       1998 - 2002

Research Interests

Natural language processing (NLP), information extraction (IE), information retrieval (IR), and network analysis methods with applications to biomedical text mining.

Publications

• Arzucan Ozgur and Dragomir R. Radev. Detecting Speculations and their Scopes in Scientific Text. In Proceedings of the Conference on Empirical Methods in Natural Language Processing (EMNLP'09), pages 1398-1407, Singapore, August 2009.

• Arzucan Ozgur and Dragomir R. Radev. Supervised classification for extracting biomedical events. Proceedings of the BioNLP'09 Workshop Shared Task on Event Extraction at NAACL-HLT, Boulder, Colorado, USA, pages 111-114, June 2009.

• V. Glenn Tarcea, Terry Weymouth, Alex Ade, Jing Gao, Vasudeva Mahavisno, Zach Wright, Adriane Chapman, Magesh Jayapandian, Arzucan Ozgur, Yuanyuan Tian, Jim Cavalcoli, Barbara Mirel, Jignesh Patel, Dragomir Radev, Brian Athey, David States, and H.V. Jagadish. Michigan molecular interactions (mimi) r2: From interacting proteins to pathways. Nucleic Acids Research, 37:D642–D646, January 2009.

• Arzucan Ozgur, Thuy Vu, Gunes Erkan, and Dragomir R. Radev. Identifying gene-disease associations using centrality on a literature mined gene interaction network. Bioinformatics, Volume 24, Number 13, pp. i277-i285, 2008.

• Florian Leitner, Martin Krallinger, Carlos Rodriguez-Penagos, Joerg Hakenberg, Conrad Plake, Cheng-Ju Kuo, Chun-Nan Hsu, Richard Tzong-Han Tasi, Hsi-Chuan Hung, William W. Lau, Calvin A. Johnson, Rune Saetre, Kazuhiro Yoshida, Yan Hua Chen, Sun Kim, Soo-Yong Shin, Byoung-Tak Zhang, William A. Baumgartner, Jr., Lawrence Hunter, Barry Haddow, Michael Matthew, Xinglong Wang, Patrick Ruch, Frederic Ehrler, Arzucan Ozgur, Gunes Erkan, Dragomir R. Radev, Michael Krauthammer, ThaiBinh Luong, Robert Hoffmann, Chris Sander, and Alfonso Valencia. Introducing meta-services for biomedical information extraction. Genome Biology, 9(S2):S6, 2008.

• Arzucan Ozgur, Burak Cetin, and Haluk Bingol. Co-occurrence Network of Reuters News. International Journal of Modern Physics C (IJMPC), Volume 19, Issue 5, pp. 689-702, 2008.

• Gunes Erkan, Arzucan Ozgur, and Dragomir R. Radev. Semi-supervised classification for extracting protein interaction sentences using dependency parsing. In Proceedings of the Conference of Empirical Methods in Natural Language Processing (EMNLP '07), Prague, Czech Republic, June 28-30 2007.

• Gunes Erkan, Arzucan Ozgur, and Dragomir R. Radev. Extracting interacting protein pairs and evidence sentences by using dependency parsing and machine learning techniques . In Proceedings of the Second BioCreAtIvE Challenge Workshop - Critical Assessment of Information Extraction in Molecular Biology, Madrid, Spain, ISBN 84-933255-6-2, April 23-25 2007.

• Arzucan Ozgur and Tunga Gungor. Classification of Skewed and Homogenous Document Corpora with Class-Based and Corpus-Based Keywords. 29th German Conference on Artificial Intelligence (KI 2006), Eds. C.Freksa, M.Kohlhase and K.Schill, June 2006, Bremen - LNAI (Lecture Notes in Artificial Intelligence), Vol.4314, 2006, p.91-101, Springer-Verlag, Berlin Heidelberg.

• Arzucan Ozgur and Taflan I. Gundem. Efficient Indexing Technique for XML-Based Electronic Product Catalogs. Electronic Commerce Research and Applications, Volume 5, Issue 1, pp. 66-77, Elsevier Science, 2006.

• Arzucan Ozgur, Levent Ozgur, and Tunga Gungor. Text Categorization with Class-Based and Corpus-Based Keyword Selection. Lecture Notes in Computer Science, Vol.3733, (Proc. of the 20th International Symposium on Computer and Information Sciences), pp.607-616, Springer-Verlag, 2005.

• Arzucan Ozgur and Haluk Bingol. Social Network of Co-occurrence in News Articles. Lecture Notes in Computer Science, Vol. 3280, (Proc. of the 19th International Symposium on Computer and Information Sciences), pp. 688-697, Springer Verlag, 2004. (You can download the dataset used in this study from here.)

• Arzucan Ozgur. Supervised and Unsupervised Machine Learning Techniques for Text Document Categorization, MS Thesis, Computer Engineering, Bogazici University, Istanbul, Turkey, July 2004. Advisor: Ethem Alpaydin. (You can download the pre-processed datasets used in this study from here.)

Work Experience

University of Michigan, Ann Arbor, Michigan                                                                                                       2006 - present
    Graduate Student Research Assistant (Advisor: Dragomir Radev)

Bogazici University, Istanbul, Turkey                                                                                                                     2002 - 2006
    Teaching Assistant
    Courses Assisted: Database Systems, Software Engineering, Pattern Recognition