• Publications from the Pestian Lab

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    Sánchez Fernández I, Abend S, Agadi S, An S, Arya R, Carpenter J, Chapman K, Gaillard WD, Glauser TA, Goldstein D, Goldstein JL, Goodkin HP, Hahn CD, Heinzen EL, Mikati MA, Peariso K, Pestian JP Ream M, Riviello JJ, Tasker RC, Williams K, Loddenkemper T. Gaps and opportunities in refractory status epilepticus research in children: A multi-center approach by the Pediatric Status Epilepticus Research Group (pSERG), Seizure, 2014 Feb;23(2):87-97.

    Pestian, JP  Editorial: Computational Semantics in Clinical Text,Biomedical Informatics`            Insights 2013 Jun 24;6(Suppl 1):1-2.

    Matykiewicz PM, K. Bretonnel-Cohen, KD. Holland, TA. Glauser, SM. Standridge, SM. Verspoor, JP Pestian, Earlier Identification of Epilepsy Surgery Candidates Using Natural Language Processing, Association for Computational Linguistics, BioNLP, Sofia Bulgaria, August 8-9, 2013

    Scherer S, JP Pestian and LP Morency; Investigating The Speech Characteristics of Suicidal Adolescent, IEEE-International Conference on Acoustics, Speech, and Signal Processing, May 2013, Vancouver

    Pestian JP, P Matykiewicz, KB Cohen, J Grupp-Phelan, L Richey, G Meyers, C Canter, Michael Sorter; Suicidal Thought Markers: A Controlled Trial Examining the Language of Suicidal Adolescents; In Proceedings American Association of Suicidology, April 2013

    Dexheimer JW, LH Johnson, I Solti, D Aronsky, JP Pestian. Informatics and Decision Support in Pediatric Biomedical Informatics: Computer Applications in Pediatric Research, ed. John Hutton, Josey Bass, Springer 2013 edition.

    Savova G L Deleger, I Solti, JP Pestian and J Dexheimer, Natural Language Processing: Applications in Pediatric Research, Pediatric Biomedical Informatics:Computer Applications in Pediatric Research, ed. John Hutton, Josey Bass, Springer 2013 edition.

    Pestian JP, Matykiewicz P, Linn-Gust M, South B, Uzuner O, Wiebe J, Cohen KB, Hurdle J, Brew C. Sentiment Analysis of Suicide Notes: A Shared Task; Biomed Inform Insights. 2012 Jan 30;5(Suppl 1):3-16.

    Pestian, JP; Introductory Editorial to Shared Task: Sentiment Analysis of Suicide Notes;Biomed Inform Insights. 2012;5(Suppl. 1):1. doi: 10.4137/BII.S9297. Epub 2012 Jan 30.

    Glauser TA, Cnaan A, Shinnar S, Hirtz DG, Dlugos D, Masur D, Clark PO, Adamson PC; Childhood Absence Epilepsy Study Team, Ethosuximide, valproic acid, and lamotrigine in childhood absence epilepsy: initial monotherapy outcomes at 12 months; Epilepsia. 2013 Jan;54(1):141-55. doi: 10.1111/epi.12028. Epub 2012 Nov 21.

    Pestan JP, P Matykiewicz P, M Linn-Gust. What’s In A Note: Construction of a Suicide Note Corpora, Biomedical Informatics Insights. 2012:5 1-6 

    Pestian JP, P Matykiewicz,  M Spencer, K Holland, S Standridge, and  T Glauser. Selecting Anti-Epileptic Drugs:  A Pediatric Epileptologist’s View, A Computer’s View. Acta Neurologica Scandinavica, 2012 Sep 23. doi: 10.1111/ane.12002

    Matykiewicz P, Pestian. Effect of small sample size on text categorization with support vector machines, In Proceedings of the 2012 Workshop on Biomedical Natural Language Processing, June 2012, Montr{\'e}al, Canada. Association for Computational Linguistics, 193--201.

    Cohen, K, Fushman, D.  Weber, B, Tsujii, J, A, Pestian JP, Ananiadou, S. 2011 Biomedical Natural Language Processing Workshop In: proceedings of the 2012 Association of Computational Linguistics; Montreal, Canada 2012.

    Pestian JP, Matykiewicz P, Linn-Gust M, South B, Uzuner O, Wiebe J, Cohen KB, Hurdle J, Brew C. Sentiment Analysis of Suicide Notes: A Shared Task. Biomed Informatics Insights. 2012 Jan 30;5(Suppl 1):3-16.

    Uzuner O, Bodnari A, Shen S, Forbush T, Pestian J, South BR. Evaluating the state of the art in coreference resolution for electronic medical records. J Am Med Inform Assoc. 2012 Feb 24.

    Pestian JP. The Last Word: Machine Learning Analysis of Suicide Note. American Association of Suicidology. Proceedings Orlando, FL, April 30, 2010.

    Pestian JP, Matykiewicz P. Development of a Suicide Notes Corpus for Integration Into Advanced Clinical Decision Support. In proceedings of World Congress of Behavioral and Cognitive Therapies, Boston, MA, June 2010.

    Pestian JP. A Conversation with Edwin Shneidman, Ph.D. Suicide and Life Threatening Behavior. 40:4 516-23. 2010.

    Pestian JP, Nasrallah H, Matykiewicz P, Bennet A, Leenaars A. Suicide Note Classification Using Natural Language Processing: A Content Analysis. Biomedical Informatics Insights. 3 19-28. 2010.

    D'Avolio L, Demner-Fushman D, Chapman W, Pestian JP. An Introduction to Clinical Natural Language Processing: Primer Series. American Medical Informatics Association, Nov. 13, 2010, Washington, DC.

    Pestian JP, Matykiewicz P, Kowatch R, Grupp-Phelan J, Mazlack L, Leenaars A. Suicide note classification using natural language processing: A content analysis. Proceedings of the American Association of Suicidology, San Francisco, April 18, 2009, p 97.

    Pestian JP, Spencer M, Matykiewicz P, Zhang K, Vinks S, Glauser T. Personalizing Drug Selection Using Advanced Clinical Decision Support: A Case Study. Biomedical Informatics Insight. (2) 19-29. 2009.

    Demner-Fushman D, Ananiadou S, Cohen KB, Pestian JP, Tsujii J, Webber B. Themes in biomedical natural language processing. BioNLP. 1-2. 2009.

    Matykiewicz P, Pestian JP, Duch W. Clustering semantic spaces of suicide notes and newsgroups articles. Proceedings of ACL, BioNLP 179-184. 2009.

    Matykiewicz P, Duch W, Zender PM, Crutcher KA, Pestian JP. Neurocognitive Approach to Clustering of PubMed Query Results. ed. Mario K, Kasabov N, Coghill G, in Advances in Neuro-Information Processing, Springer, Heidelberg, Lecture Notes in Computer Science, 5507: pp 70-79.

    Zender PM, Pestian JP, Matkiewicz PM, Glauser TC. Visual Language For Representing Scientific Concepts. Information Design Journal. [in press].

    Pestian JP, Friedman C, Hurdle J, Chapman W. Applying Natural Language Processing in the Clinical Setting. American Medical Informatics Association, Nov 2009, San Francisco, in Proceedings.

    D'Avolio L, Demner-Fushman D, Chapman W, Pestian JP. Natural Language Processing Tutorial, Nov 2009, San Francisco, in Proceedings.

    Matykiewicz P, Duch W, Zender PM, Crutcher KA, Pestian JP. Neurocognitive approach to clustering of PubMed query results. Köppen, M., Kasabov, N., Coghill, G. Lecture Notes in Computer Science 550, 2009.

    Pestian JP, Matykiewicz P, Grupp-Phelan J, Arszman-Lavanier S, Combs J, Kowatch R. Using natural language processing to classify suicide notes. AMIA Annu Symp Proc. 6:1091. Nov 2008.

    Pestian JP, Matykiewicz P, Leenaars A, Grupp-Phelan J, Arszman-Lavanier S, Combs S, Kowatch R. Distinguishing between completer and simulated suicide notes: A comparison of machine learning methods. In Proceedings Association of Computational Linguistics, Columbus, OH June 2008.

    Duch W, Matykiewicz P, Pestian JP. Neurolinguistic approach to natural language processing with applications to medical text analysis. Neural Netw. 21(10):500-510. Dec, 2008.

    Demner-Fushman D, Ananiadou S, Cohen KB, Pestian JP, Tsujii J, Webber B. Themes in biomedical natural language processing. Bioinformatics. 9 Suppl 11:S1. Nov 19, 2008.

    Duch W, Matykiewicz P, Pestian JP. Neurolinguistic approach to vector representation of medical concepts. Advances in neural networks research. p. 3110-15. Jun 7, 2008.

    Pestian JP, Matykiewicz P. Classification of suicide notes using natural language processing. In Themes in biomedical natural language processing. BMC Bioinformatics. 9 Suppl 11:S1; p. 96-98. Nov 19, 2008.

    Duch W, Matykiewicz P, Pestian JP. Neurolinguistic approach to vector representation of medical conceptsProc. of the 20th Int. Joint Conference on Neural Networks (IJCNN), 2007 Aug 12-17; Orlando: IEEE Press. p. 1808.

    Duch W, Matykiewicz P, Pestian JP. Towards understanding of natural language: neurocognitive inspirations. In: J. Marques de Sá et al., editors:  Artificial neural networks - ICANN 2007, Proceedings, Part II: Springer-Verlag LNCS 4669. p. 953–62.

    Pestian JP, Brew C, Matykiewicz PM, Hovermale DJ, Johnson N, Cohen KB, Duch WA. Shared Task Involving Multilabel Classification of Clinical Free Text. Proceedings of ACL BioNLP, pp 97-104 Prague, June 2007.

    Rajan J, Davis KC, Matykiewicz P, Duch W, Pestian JP. Medical acronym disambiguation using online sources. Enterprise Information Systems and Web Technologies. 123-30. 2007.

    Bertonnel K, Demner-Fushman D, Friedman C, Hirshman L, Pestian JP. Biological, translation, and clinical processing. Proceedings of ACL BioNLP, pp 3-8, Prague, June, 2007.

    Pestian JP, Itert L, Anderson C, Duch W. Preparing clinical text for use in biomedical research. J Database Manage. 17(2):1-11. Apr-Jun, 2006.

    Matykiewicz P, Pestian JP, Duch W. Unambiguous concept mapping in radiology reports: graphs of consistent concepts. AMIA Annu Symp Proc. 2006 Nov; Washington, DC. p. 1024.

    Matykiewicz P, Duch W, Pestian JP. Non ambiguous concept mapping in medical domain. Lecture Notes in Computer Science 2006, pp 941-950 Springer Berlin.