Refereed Journal Articles

  1. Bodnari A., Szolovits P., Uzuner Ö.  (2012).  “MCORES: A System for Noun Phrase Coreference Resolution for Clinical Records.”  Journal of the American Medical Informatics Association. doi:10.1136/amiajnl-2011-000591.
  2. Uzuner Ö., Bodnari A., Shen S., Forbush T., Pestian J., South B.  (2012). “Evaluating the State of the Art in Coreference Resolution for Electronic Medical Records.”  Journal of the American Medical Informatics Association. doi:10.1136/amiajnl-2011-000784.
  3. Pestian J.P., Matykiewicz P., Linn-Gust M., South B., Uzuner O., Wiebe J., Cohen K., Hurdle J., Brew C. (2012). “Sentiment Analysis of Suicide Notes: A Shared Task.”  Biomedical Informatics Insights. 2012;5 (Suppl. 1):1–14.
  4. Uzuner Ö., South B., Shen S., DuVall S. (2011).  “2010 i2b2/VA Challenge on Concepts, Assertions, and Relations in Clinical Text.”  Journal of the American Medical Informatics Association. 2011;18:552-556 Published Online First: 16 June 2011 doi:10.1136/amiajnl-2011-000203.
  5. Halgrim S.R., Xia F., Solti I., Cadag E., Uzuner Ö. (2011). “A Cascade of Classifiers for Extracting Medication Information from Discharge Summaries.” Journal of Biomedical Semantics. 2011;2(Suppl 3):S2 (14 July 2011).
  6. Goel S., Gangolly J., Faerman S., Uzuner Ö. (2010). “Can Linguistic Predictors Detect Fraudulent Financial Filings?Journal of Emerging Technologies in Accounting. 2010;7(1):25 doi:10.2308/jeta.2010.7.1.25. 
  7. Uzuner Ö., Mailoa J., Ryan R.J., Sibanda T. (2010).  “Semantic Relations for Problem-Oriented Medical Records.”  International Journal Artificial Intelligence in Medicine.  2010;50:63-73 doi:10.1016/j.artmed.2010.05.006. 
  8. Uzuner Ö., Solti I., Xia F., Cadag E. (2010). “Community Annotation Experiment for Ground Truth Generation for the i2b2 Medication Challenge.”  Journal of the American Medical Informatics Association. 2010;17:519-523 doi:10.1136/jamia.2010.004200
  9. Uzuner Ö., Solti I., Cadag E. (2010).  “Extracting Medication Information from Clinical Text.”  Journal of the American Medical Informatics Association. 2010;17:514-518 doi:10.1136/jamia.2010.003947. 
  10. Goldstein I., Uzuner Ö. (2009). “Specializing for Predicting Obesity and its Co-morbidities.”  Journal of Biomedical Informatics.  2009;42:873-886. 
  11. Uzuner Ö. (2009).  “Recognizing Obesity and Co-morbidities in Sparse Data.”  Journal of the American Medical Informatics Association. July 2009;16(4):561-570. 
  12. Uzuner Ö., Zhang X., Sibanda T. (2009). “Machine Learning and Rule-Based Approaches to Assertion Classification.”  Journal of the American Medical Informatics Association. January 2009;16(1):109-115.  
  13. Uzuner Ö., Sibanda T., Luo Y., Szolovits P. (2008). “A De-identifier for Medical Discharge Summaries.”  International Journal Artificial Intelligence in Medicine. January 2008;42(1):13-35. 
  14. Uzuner Ö., Goldstein I., Luo Y., Kohane I. (2008). “Identifying Patient Smoking Status from Medical Discharge Records.”  Journal of the American Medical Informatics Association. January 2008;15(1):14-24. 
  15. Uzuner Ö., Luo Y., Szolovits P. (2007). “Evaluating the State-of-the-Art in Automatic De-identification.Journal of the American Medical Informatics Association. September 2007;14(5):550-563. 
  16. Uzuner Ö., Katz B. (2005). “A Comparative Study of Language Models for Book and Author Recognition.Lecture Notes in Computer Science. 2005;3651:969. Springer-Verlag GmbH. 2005

Invited Papers and editorials

  1. Chapman W.W., Nadkarni P. M., Hirschman L., D’Avolio L., Savova G., Uzuner Ö.  (2011). “Overcoming Barriers to NLP for Clinical Text: The Role of Shared Tasks and the Need for Additional Creative Solutions.Journal of the American Medical Informatics Association. 2011;18:540-543 doi:10.1136/amiajnl-2011-000465. 
  2. Uzuner Ö., Argamon S., Karlgren J. (2006). “Workshop Report: Stylistics for Text Retrieval in Practice.”  ACM SIGIR Forum. December 2006;40(2).  ACM Press.

Book Chapters

  1. McKnight L.W., Anius D., Uzuner Ö. (2004). “Internet Services. Quality of Service in Grids, Networks and Markets.” Chapter: Virtual Markets in Wireless Grids:  Peering Policy Prospects. September 2004.  MIT Press.  ISBN 0-262-13448-9.
  2. Uzuner Ö.  (1999). “Chapter 3: Ownership Trends” in Trends in Telecommunication Reform “Convergence and Regulation”-2nd edition, 1999. International Telecommunications Union, Geneva, Switzerland; ISBN 92-61-08141-X.

Refereed Conference Proceedings Articles

  1. South B.R., Shen S., Barrus R., DuVall S.L., Uzuner Ö., Weir C. (2011).  “Qualitative Analysis of Workflow Modifications Used to Generate the Reference Standard for the 2010 i2b2/VA Challenge.  Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2011), Washington, DC, October 22-26, 2011.
  2. Huang K.-Y., Nambisan P., Uzuner Ö. (2010). “Informational Support or Emotional Support: Preliminary Study of an Automated Approach to Analyze Online Support Community Contents.”  Proceedings of the 31st International Conference on Information Systems (ICIS'10), St. Louis, MO, December 12-15, 2010. 
  3. Goldstein I., Uzuner Ö. (2010). “Does Negation Really Matter?” In: Morante R., Sporleder C., Eds. Proceedings of the Workshop on Negation and Speculation in Natural Language Processing, Uppsala, Sweden 2010;23-7. 
  4. Halgrim S., Xia F., Solti I., Cadag E., Uzuner Ö. (2010).  “Extracting Medication Information from Discharge Summaries.”  Proceedings of the NAACL-HLT 2010 2nd Louhi Workshop on Text and Data Mining of Health Documents, Los Angeles, CA, June 5-6, 2010.   
  5. Halgrim S.R., Xia F., Solti I., Cadag E., Uzuner Ö. (2010).  “Statistical Extraction of Medication Information from Clinical Records.”  Proceedings of the 2010 AMIA Summit on Translational Bioinformatics, San Francisco, CA, March 10-12, 2010. 
  6. Uzuner Ö., Mailoa J., Sibanda T. (2009).  “Semantic Relations for Problem-Oriented Medical Records.” Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2009), San Francisco, CA, November 14-18, 2009. 
  7. Goldstein I., Uzuner Ö.  (2009). “Role of Preferred Terminology in the Classification of Medical Reports.Proceedings of the 24th International Symposium on Computer and Information Sciences, Kalkanli, Guzelyurt, Cyprus, September 14-16, 2009.
  8. Luo Y., Uzuner Ö.  (2009). “Causal Relation Extraction in Medical Discharge Summaries-a Hierarchical Rule-based Approach.”  Proceedings of the 4th International Symposium on Health Informatics and Bioinformatics, Ankara, Turkey, April 16-17, 2009.
  9. Uzuner Ö., Zhang X. Sibanda T. (2008). “Two Approaches to Assertion Classification.”  Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2008), Washington, DC, November 8-12, 2008.
  10. Goldstein I., Arzumstyan A., Uzuner Ö.  (2007). “Three Approaches to Automatic Assignment of ICD-9-CM Codes to Radiology Reports.”  Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2007), Chicago, IL, November 10-14, 2007.   
  11. Sibanda T., He T., Szolovits P., Uzuner Ö. (2006). “Syntactically-Informed Semantic Category Recognizer for Discharge Summaries.” Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2006), pp. 714-718, Washington, DC, November 11-15, 2006
  12. Uzuner Ö., Szolovits P., Kohane I. (2006). “i2b2 Workshop on Natural Language Processing Challenges for Clinical Records.Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2006), Washington, DC, November 10-11, 2006
  13. Sibanda T., Uzuner Ö. (2006). “Role of Local Context in De-identification of Ungrammatical, Fragmented Text.” Proceedings of the North American Chapter of Association for Computational Linguistics/Human Language Technology (NAACL-HLT 2006), pp. 65-73, New York, NY, June 5-7, 2006.  
  14. Uzuner Ö. (2006). “Linguistically Informed Digital Fingerprints for Text.Proceedings of the SPIE, Security, Steganography, and Watermarking of Multimedia Contents VIII, Delp III E.J., Wong P.W., Eds. 2006;6072:607208.  San Jose, CA, January 15, 2006.
  15. Katz B., Marton G., Borchardt G., Brownell A., Felshin S., Loreto D., Louis-Rosenberg J., Lu B., Mora F., Stiller S., Uzuner Ö., Wilcox A. (2005).  “External Knowledge Sources for Question Answering.” Proceedings of the 14th Annual Text REtrieval Conference (TREC2005), Gaithersburg, MD, November 16, 2005. 
  16. Uzuner Ö., Katz B.  (2005). “Style vs. Expression in Literary Narratives.”  Proceedings of the 28th Annual International ACM SIGIR Conference (SIGIR 2005) Workshop on Using Stylistic Analysis of Text for Information Access, Salvador, Brazil, August 15-19, 2005.  
  17. Uzuner Ö., Katz B.  (2005). “Capturing Expression Using Linguistic Information.”  Proceedings of the 20th National Conference on Artificial Intelligence (AAAI-05), Pittsburgh, PA, July 9-13, 2005
  18. Uzuner Ö., Katz B. (2005). “Using Syntactic Information to Identify Plagiarism.”  Proceedings of the Association for Computational Linguistics Workshop on Educational Applications (ACL 2005), Ann Arbor, MI, June 25-30, 2005
  19. Katz B., Bilotti M., Felshin S., Fernandes A., Hildebrandt W., Katzir R., Lin J., Loreto D., Marton G., Mora F., Uzuner Ö. (2004). “Answering Multiple Questions on a Topic from Heterogeneous Resources.” Proceedings of the 30th Text REtrieval Conference (TREC 2004), Gaithersburg, MD, November 16-19, 2004.
  20. Uzuner Ö., Davis R., Katz B. (2004). “Using Empirical Methods for Evaluating Expression and Content Similarity.Proceedings of the 37thHawaiian International Conference on System Sciences (HICSS-37), Hawaii, HI, January 5-8, 2004. IEEE Computer Society.  
  21. Uzuner Ö., Davis R. (2003). “Content and Expression-Based Copy Recognition for Intellectual Property Protection.Proceedings of the 3rd ACM Workshop on Digital Rights Management (DRM'03), Washington, DC, October 27, 2003.  
  22. Katz B., Hurwitz R., Lin J., Uzuner Ö. (2003). “Better Public Policy through Natural Language Information Access.”  Proceedings of the National Conference on Digital Government Research, Boston, MA, May 18-21, 2003.  
  23. Uzuner Ö., Davis R. (2003). “Digital Fingerprinting for Distribution Volume Tracking: Intellectual Property Protection in Wireless Grids.Proceedings of the International Conference on Computer, Communication and Control Technologies (CCCT ‘03)/9th International Conference on Information Systems Analysis and Synthesis (ISAS ‘03), Orlando, FL, July 31-August 2, 2003.  
  24. McKnight L., Anius D., Uzuner Ö. (2002). “Virtual Markets in Wireless Grids: Peering Policy Obstacles.”   Proceedings of the 30th Research Conference on Communications, Information and Internet Policy/30th Annual Telecommunications Policy Research Conference (TPRC-30), Alexandria, VA, September 28-30, 2002.  
  25. Uzuner Ö., McKnight L. (2001). “Sales Taxes on the Internet:  When and How to Tax?”  Proceedings of the 34th Annual Hawaiian International Conference on System Sciences (HICSS-34), Maui, HI, January 2001.  IEEE Computer Society.
  26. Uzuner Ö.  (1998). Word Sense Disambiguation Applied to Information Retrieval. Master's Thesis. MIT. May 1998. 
  27. Uzuner Ö., Siegel M., Madnick S. (1998). “Sharing Information through trusted agents.”  Proceedings of Euro-Med-Net Conference, Nicosia, Cyprus, March 1998. 

Refereed Conference Posters

  1. Forbush T., Shen S., Thibault J., Weir C., Uzuner Ö., South B.R. (2011). “Using the UMLS as a Semantic Priming Mechanism for Co-reference Resolution in Annotation of Clinical Texts.Proceedings of the Fall Symposium of the American Medical Informatics Association (AMIA 2011), Washington, DC, October 22-26, 2011.
  2. Nahnsen T., Uzuner Ö., Katz B. (2005). “Lexical Chains and Sliding Locality Windows in Content-based Text Similarity Detection.” Proceedings of the 2nd International Joint Conference on Natural Language Processing (IJCNLP-05), Jeju Island, Korea, October 11-13, 2005.   
  3. Uzuner Ö., Katz B., Yuret D. (1999). “Word Sense Disambiguation for Information Retrieval.”  Proceedings of the 16th National Conference on Artificial Intelligence (AAAI ‘99), Orlando, FL, July 18-22, 1999.

Abstracts and Technical Reports

  1. Nahnsen T., Uzuner Ö., Katz B.  “Lexical Chains and Sliding Locality Windows in Content-based Text Similarity Detection.”  MIT CSAIL Memo AIM-2005-017.  2005.
  2. Uzuner Ö., Davis R., Katz B.  “Using Linguistic Information to Recognize Text Similarity.”  MIT CSAIL Lab Abstract, 2005.
  3. Uzuner Ö., Sibanda T., Szolovits P. “Automatically Generating Medical Ontologies.”  MIT CSAIL Lab Abstract, 2005.
  4. Sibanda T., Uzuner Ö., Szolovits P. “Classifying Inter-concept Relationships In Medical Discharge Summaries Using Linguistic Information.”  MIT CSAIL Lab Abstract, 2005.
  5. Uzuner Ö. “Distribution Volume Tracking on Privacy-Enhanced Wireless Grid.MIT CSAIL Memo AIM-2004-018. 2004.
  6. Uzuner Ö., Davis R., Katz B.  “Recognizing Text Similarity.” MIT CSAIL Lab Abstract, 2004.
  7. Uzuner Ö., Davis R., Katz B.  “Recognizing Text Similarity.” MIT AI Lab Abstract, 2002.
  8. Uzuner Ö., Katz B.  “Non-Verbatim Copyright Infringement Detection for Text.MIT AI Lab Abstract, 2001.
  9. Katz B., Uzuner Ö., Yüret D. “Word Sense Disambiguation for Information Retrieval.”  MIT AI Lab Abstract, 2000.
  10. Katz B., Uzuner Ö. “Word Sense Disambiguation for Information Retrieval.”  MIT AI Lab Abstract, 1998.