Cosmin "Adi" Bejan, PhD

Assistant Professor
Department of Biomedical Informatics
Center for Precision Medicine
Vanderbilt University Medical Center

2525 West End Avenue
Suite 1500
Nashville, TN 37203
email: adi.{lastname}@vanderbilt.edu

Brief Bio
I am a computer scientist who is passionate about doing research on biomedical informatics, natural language processing, and machine learning. In particular, I am interested in precision phenomics, open domain and clinical information extraction, and phenome-wide association studies. Before joining the Department of Biomedical Informatics at Vanderbilt University, I was involved in research projects in the Department of Biomedical Informatics and Medical Education at the University of Washington, the Institute for Creative Technologies at the University of Southern California, the Human Language Technology Research Institute at the University of Texas at Dallas, and the Faculty of Computer Science at the Alexandru Ioan Cuza University of Iasi, Romania.
Publications

2022
  • Improving ascertainment of suicidal ideation and suicide attempt with natural language processing
    Cosmin A. Bejan, Michael Ripperger, Drew Wilimitis, Ryan Ahmed, JooEun Kang, Katelyn Robinson, Theodore J. Morley, Douglas M. Ruderfer, Colin G. Walsh
    Scientific Reports, 2022.
    paper ]
  • Machine Learning Models to Predict 24 Hour Urinary Abnormalities for Kidney Stone Disease
    Nicholas L Kavoussi, Chase Floyd, Abin Abraham, Wilson Sui, Cosmin Bejan, John A. Capra, Ryan Hsi
    Urology, 2022.
    paper ]
  • Prediction of Future Health Care Utilization Through Note-extracted Psychosocial Factors
    David A. Dorr, Ana R. Quiñones, Taylor King, Melissa Y. Wei, Kellee White, Cosmin A. Bejan
    Medical Care, 2022.
    paper ]
  • Kidney stone prevalence based on self-report and Electronic Health Records: insight into the prevalence of active medical care for kidney stones
    Connor M. Forbes, Naren Nimmaggadda, Nicholas L. Kavoussi, Yaomin Xu, Cosmin A. Bejan, Nicole L. Miller, Ryan S. Hsi
    medRxiv, 2022.
    preprint ]
  • Peripheral blood monocyte abundance predicts outcomes in breast cancer patients
    Margaret L. Axelrod, Yu Wang, Yaomin Xu, Xiaopeng Sun, Cosmin A. Bejan, Paula I. Gonzalez-Ericsson, Sara Nunnery, Riley E. Bergman, Joshua Donaldson, Angel Guerrero-Zotano, Chiara Massa, Barbara Seliger, Melinda Sanders, Ingrid A. Mayer, Justin M. Balko
    Cancer Research Communications, 2022.
    paper ]
  • Patient-specific comorbidities as prognostic variables for survival in myelofibrosis
    Andrew L. Sochacki*, Cosmin A. Bejan*, Shilin Zhao, Ameet Patel, Ashwin Kishtagari, Travis P. Spaulding, Alexander J. Silver, Shannon S. Stockton, Kelly Pugh, Rodney Dixon Dorand, Jr, Manasa Ram Bhatta, Nicholas Strayer, Siwei Zhang, Christina A. Snider, Thomas P Stricker, Aziz Nazha, Alexander G. Bick, Yaomin Xu, Michael R Savona
    Blood Advances, 2022.
    paper ] (*contributed equally)
  • High burden of clonal hematopoiesis in first responders exposed to the World Trade Center disaster
    Sakshi Jasra, Orsi Giricz, Rachel Zeig-Owens, Kith Pradhan, David G. Goldfarb, Angelica Barreto-Galvez, Alexander J. Silver, Jiahao Chen, Srabani Sahu, Shanisha Gordon-Mitchell, Gaurav S. Choudhary, Srinivas Aluri, Tushar D. Bhagat, Aditi Shastri, Cosmin A. Bejan, Shannon S. Stockton, Travis P. Spaulding, Victor Thiruthuvanathan, Hiroki Goto, Jeannine Gerhardt, Syed Hissam Haider, Arul Veerappan, Matthias Bartenstein, George Nwankwo, Ola Landgren, Michael D. Weiden, Jacqueline Lekostaj, Ryan Bender, Frederick Fletcher, Lee Greenberger, Benjamin L. Ebert, Ulrich Steidl, Britta Will, Anna Nolan, Advaitha Madireddy, Michael R. Savona, David J. Prezant, Amit Verma
    Nature Medicine, 2022.
    paper ] [ press ] [ press ] [ press ] [ press ]
  • Improving ascertainment of suicidal ideation and suicide attempt with natural language processing
    Cosmin A Bejan, Michael Ripperger, Drew Wilimitis, Ryan Ahmed, JooEun Kang, Katelyn Robinson, Theodore J Morley, Douglas M Ruderfer, Colin G Walsh
    medRxiv, 2022.
    preprint ]
  • Interactive network-based clustering and investigation of multimorbidity association matrices with associationSubgraphs
    Nick Strayer, Siwei Zhang, Lydia Yao, Tess Vessels, Cosmin A Bejan, Ryan S Hsi, Jana K Shirey-Rice, Justin M Balko, Douglas B Johnson, Elizabeth J Philips, Alex Bick, Todd L Edwards, Digna R Velez Edwards, Jill M Pulley, Quinn S Wells, Michael R Savona, Nancy J Cox, Dan M Roden, Douglas M Ruderfer, Yaomin Xu
    medRxiv, 2022.
    preprint ]
  • Vascular Alterations Impede Fragile Tolerance to Pregnancy in Type 1 Diabetes
    Kelsey L. McNew, Abin Abraham, Daniel E. Sack, Charles Duncan Smart, Yasminye D. Pettway, Alexander Falk, Rolanda L. Lister, Annika B. Faucon, Cosmin A. Bejan, John A. Capra, David M. Aronoff, Kelli L. Boyd, Daniel J. Moore
    F&S Science, 2022.
    paper ]
  • Mosaic chromosomal alterations increase risk of incident monoclonal gammopathy of undetermined significance and multiple myeloma
    Kelly von Beck, Taralynn Mack, Ashwin Kishtagari, Yajing Li, Cosmin Bejan, Muhamed Baljevic, Michael Savona, Alexander Bick
    Clinical Lymphoma Myeloma and Leukemia, August 2022.
    abstract ]
  • Ascertaining and Phenotyping Suicidality at Scale Using Electronic Health Records
    Colin Walsh, Michael Ripperger, Drew Wilimitis, Ryan Ahmed, Jooeun Kang, Douglas Ruderfer, Theodore Morley, Cosmin Bejan
    Biological Psychiatry, May 2022.
    abstract ]
  • Using Natural Language Processing to Identify Laterality of Nephrolithiasis Surgical Procedures
    Cosmin A. Bejan, Siwei Zhang, Yaomin Xu, Ryan S. Hsi
    American Medical Informatics Association (AMIA) Informatics Summit, Chicago, IL, March 2022.
    abstract ]
  • Improving the Identification of Substance Use from Clinical Notes with BERT
    Stuart J. Waller, Cosmin A. Bejan
    American Medical Informatics Association (AMIA) Informatics Summit, Chicago, IL, March 2022.
    abstract ]

2021
  • Peripheral Blood Monocyte Abundance Predicts Outcomes in Breast Cancer Patients
    Justin Balko, Margaret Axelrod, Yu Wang, Yaomin Xu, Xiaopeng Sun, Cosmin A. Bejan, Paula González-Ericsson, Sara Nunnery, Riley Berhman, Joshua Donaldson, Angel Guerrero-Zotano, Chiara Massa, Barbara Seliger, Melinda Sanders, Ingrid Mayer
    Research Square, 2021.
    preprint ]
  • DrugWAS: Drug-wide association studies for COVID-19 drug repurposing
    Cosmin A. Bejan, Katherine N. Cahill, Patrick J. Staso, Leena Choi, Josh F. Peterson, Elizabeth J. Phillips
    Clinical Pharmacology & Therapeutics (CPT), 2021.
    paper ][ press ]
  • Machine Learning Prediction of Kidney Stone Composition Using Electronic Health Record-Derived Features
    Abin Abraham, Nicholas Kavoussi, Wilson Sui, Cosmin A. Bejan, John A Capra, Ryan Hsi
    Journal of Endourology, 2021.
    paper ]
  • Phenotyping coronavirus disease 2019 during a global health pandemic: lessons learned from the characterization of an early cohort
    Sarah DeLozier, Sarah Bland, Melissa McPheeters, Quinn Wells, Eric Farber-Eger, Cosmin A. Bejan, Daniel Fabbri, Trent Rosenbloom, Dan Roden, Kevin B. Johnson, Wei-Qi Wei, Josh Peterson, Lisa Bastarache
    Journal of Biomedical Informatics (JBI), 2021.
    paper ]
  • Leveraging Machine Learning to Characterize the Role of Socio-economic Determinants on Physical Health and Well-being Among Veterans
    Christos Makridis, David Zhao, Cosmin A. Bejan, Gil Alterovitz
    Computers in Biology and Medicine, 2021.
    paper ] [ press ]
  • DrugWAS: Leveraging drug-wide association studies to facilitate drug repurposing for COVID-19
    Cosmin A Bejan, Katherine N Cahill, Patrick J Staso, Leena Choi, Josh F Peterson, Elizabeth J Phillips
    medRxiv, 2021.
    preprint ] [ press ]
  • Peripheral immunity predicts therapeutic outcomes in breast cancer patients
    Margaret L Axelrod, Yu Wang, Yaomin Xu, Cosmin A Bejan, Xiaopeng Sun, Paula I Gonzalez-Ericsson, Riley E Bergman, Joshua Donaldson, Sara Nunnery, Melinda Sanders, Chiara Massa, Barbara Seliger, Ingrid A Mayer, Justin M Balko
    San Antonio Breast Cancer Symposium (SABCS), San Antonio, TX, December 2021.
    abstract ]
  • A genome-wide association study of nephrolithiasis identified from electronic health records
    Ryan Hsi, Siwei Zhang, Yaomin Xu, Cosmin A Bejan
    American Urological Association (AUA) Annual Meeting, Las Vegas, NV, September 2021.
    abstract ]
  • Machine learning models to predict 24-hour urine abnormalities from electronic health record-derived features
    Nicholas Kavoussi, Abin Abraham, Wilson Sui, Cosmin Bejan, John Capra, Ryan Hsi
    American Urological Association (AUA) Annual Meeting, Las Vegas, NV, September 2021.
    abstract ]
  • Improving Methods of Identifying Anaphylaxis for Medical Product Safety Surveillance Using Natural Language Processing and Machine Learning
    David S. Carrell, Susan Gruber, James S. Floyd, Maralyssa Bann, Kara Cushing-Haugen, Ron Johnson, Vina Graham, David Cronkite, Brian Hazlehurst, Andrew H. Felcher, Cosmin A. Bejan, Adee Kennedy, Mayura Shinde, Sara Karami, Yong Ma, Danijela Stojanovic, Yueqin Zhao, Robert Ball, Jennifer Nelson
    The 37th International Conference on Pharmacoepidemiology (ICPE), Virtual Meeting, August 2021.
    abstract ]

2020
  • Building longitudinal medication dose data using medication information extracted from clinical notes in electronic health records
    Elizabeth McNeer, Cole Beck, Hannah L Weeks, Michael L Williams, Nathan T James, Cosmin A Bejan, Leena Choi
    Journal of the American Medical Informatics Association (JAMIA), 2020.
    paper ]
  • Leveraging Machine Learning to Characterize the Role of Socio-economic Determinants of Physical Health and Well-being Among Veterans
    Christos Makridis, David Zhao, Cosmin A. Bejan, Gil Alterovitz
    SSRN, 2020.
    preprint ]
  • Dense phenotyping from electronic health records enables machine-learning-based prediction of preterm birth
    Abin Abraham, Brian Le, Idit Kosti, Peter Straub, Digna R. Velez-Edwards, Lea K. Davis, Louis J. Muglia, Antonis Rokas, Cosmin A. Bejan, Marina Sirota, John A. Capra
    medRxiv, 2020.
    preprint ]
  • Association of chronic kidney disease stage with 24-hour urine values among patients with nephrolithiasis
    Wilson Sui, Joshua Calvert, Nicholas Kavoussi, Edward R Gould, Nicole Miller, Cosmin Bejan, Ryan Hsi
    Journal of Endourology, 2020.
    paper ]
  • Development of a System for Post‐marketing Population Pharmacokinetic and Pharmacodynamic Studies using Real‐World Data from Electronic Health Records
    Leena Choi, Cole Beck, Elizabeth McNeer, Hannah L. Weeks, Michael L. Williams, Nathan T. James, Xinnan Niu, Bassel W. Abou‐Khalil, Kelly A. Birdwell, Dan M. Roden, C. Michael Stein, Cosmin A. Bejan, Joshua C. Denny, Sara L. Van Driest
    Clinical Pharmacology & Therapeutics (CPT), 2020.
    paper ]
  • medExtractR: A targeted, customizable approach to medication extraction from electronic health records
    Hannah L Weeks, Cole Beck, Elizabeth McNeer, Michael L Williams, Cosmin A Bejan, Joshua C Denny, Leena Choi
    Journal of the American Medical Informatics Association (JAMIA), 2020.
    paper ]
  • Accurate and reproducible machine learning prediction of preterm birth from electronic health records linked to a genetic biobank
    A. Abraham, B. L. Le, I. Kosti, P. Straub, D. Velez-Edwards, L. K. Davis, C. Bejan, L. Muglia, M. Sirota, J. A. Capra
    American Society of Human Genetics (ASHG) 2020 Annual Meeting, Virtual Meeting, September 2020.
    abstract ]
  • Improving Identification of Anaphylaxis
    James S. Floyd, David S. Carrell, Maralyssa A. Bann, Susan Gruber, Ron L. Johnson, Vina F. Graham, Cosmin A. Bejan, Yong Ma, Adee Kennedy, Mayura Shinde, Robert Ball, Jennifer C. Nelson
    The 36th International Conference on Pharmacoepidemiology (ICPE), Virtual Meeting, September 2020.
    abstract ]
  • Feasibility and Validation of Large-Scale Data Acquisition from the Electronic Health Record to a Secure Research Database for Nephrolithiasis
    Wilson Sui, Joshua K Calvert, Nicholas L Kavoussi, Adam Lewis, Nicole L Miller, Cosmin A Bejan, Ryan S Hsi
    American Urological Association (AUA) Annual Virtual Meeting, May 2020.
    abstract ]
  • Machine Learning Models to Predict Kidney Stone Composition and 24-hour Urine Abnormalities from Electronic Health Record-Derived Features
    Chi Le, Nicholas Kavoussi, Wilson Sui, Cosmin Bejan, Nicole Miller, Ryan Hsi
    American Urological Association (AUA) Annual Virtual Meeting, May 2020.
    abstract ]
  • Urinary Citrate Wasting among Nephrolithiasis Patients Associates with Obesity and Diabetes Mellitus
    Wilson Sui, Joshua K Calvert, Nicholas L Kavoussi, John Asplin, Nicole L Miller, Cosmin A Bejan, Ryan S Hsi
    American Urological Association (AUA) Annual Virtual Meeting, May 2020.
    abstract ]

2019
  • medExtractR: A medication extraction algorithm for electronic health records using the R programming language
    Hannah L Weeks, Cole Beck, Elizabeth McNeer, Cosmin A Bejan, Joshua C Denny, Leena Choi
    medRxiv, 2019.
    preprint ]
  • Performance of a Natural Language Processing Method to Extract Stone Composition From the Electronic Health Record
    Cosmin A. Bejan, Daniel J. Lee, Yaomin Xu, Ryan S. Hsi
    Urology, 2019.
    paper ]
  • HLA-A*32:01 is strongly associated with vancomycin-induced drug reaction with eosinophilia and systemic symptoms
    Katherine C Konvinse, Jason A Trubiano, Rebecca Pavlos, Ian James, Christian M Shaffer, Cosmin A Bejan, Ryan J Schutte, David A Ostrov, Mark A Pilkinton, Misha Rosenbach, Jeffrey P Zwerner, Kristina B Williams, Jack Bourke, Patricia Martinez, Francois Rwandamuriye, Abha Chopra, Mark Watson, Alec J Redwood, Katie D White, Simon A Mallal, Elizabeth J Phillips
    Journal of Allergy and Clinical Immunology (JACI), 2019.
    paper ] [ press ]
  • JAK2V617F Clonal Hematopoiesis Stratifies By Peripheral Blood Counts
    Andrew Sochacki, Shilin Zhao, Cosmin Adrian Bejan, Travis Spaulding, Shannon Stockton, Alexander Silver, Dixon Dorand, Siwei Zhang, Thomas Stricker, Yaomin Xu, Michael R. Savona
    American Society of Hematology (ASH) Annual Meeting, Orlando, FL, December 2019.
    abstract ]
  • Patient Specific Comorbidities Impact Overall Survival in Myelofibrosis
    Andrew Sochacki, Cosmin Adrian Bejan, Shilin Zhao, Travis Spaulding, Shannon Stockton, Alexander Silver, Dixon Dorand, Siwei Zhang, Thomas Stricker, Yaomin Xu, Michael R. Savona
    American Society of Hematology (ASH) Annual Meeting, Orlando, FL, December 2019.
    abstract ]
  • medExtractR: A medication extraction algorithm for electronic health records using the R programming language
    Hannah Weeks, Cole Beck, Elizabeth McNeer, Cosmin A. Bejan, Joshua C. Denny, Leena Choi
    American Medical Informatics Association (AMIA) Annual Symposium, Washington DC, November 2019.
    abstract ]
  • Evaluation of non-linear comorbidity structure and genetic risk for classification of preterm birth from electronic health records
    Abin Abraham, Cosmin A. Bejan, Digna R. Velez-Edwards, John Capra
    American Society of Human Genetics (ASHG) 2019 Annual Meeting, Houston, TX, October, 2019.
    abstract ]
  • Identifying Patients with Significant Problems Related to Social Determinants of Health with Natural Language Processing
    David Dorr, Cosmin A. Bejan, Christie Pizzimenti, Sumeet Singh, Matt Storer, Ana Quinones
    The 17th World Congress of Medical and Health Informatics (MedInfo), Lyon, France, August 2019.
    abstract ]
  • A Natural Language Processing Algorithm for Medication Extraction from Electronic Health Records Using the R Programming Language: MedExtractR
    Hannah L Weeks, Cole Beck, Elizabeth McNeer, Joshua C Denny, Cosmin A Bejan, Leena Choi
    The 2019 Joint Statistical Meetings (JSM), Denver, CO, July 2019.
    abstract ]
  • Resolving the Preterm Birth Phenotype Using Electronic Health Records and Genomic Biobanks
    Abin Abraham, Cosmin A. Bejan, Digna Edwards, John Capra
    The 67th Annual Clinical and Scientific Meeting of the American College of Obstetricians and Gynecologists (ACOG), Nashville, TN, May 2019.
    abstract ]
  • Validation of a Natural Language Processing Method for Phenotyping Kidney Stone Composition from Large-Scale Electronic Health Records
    Ryan S. Hsi, Daniel J. Lee, Yaomin Xu, Cosmin A. Bejan
    American Urological Association (AUA) Annual Meeting, Chicago, IL, May 2019.
    abstract ]
  • A Text Mining Approach for Obstetric History Identification in Electronic Health Records
    Cosmin A. Bejan, Joshua C. Denny
    American Medical Informatics Association (AMIA) Informatics Summit, San Francisco, CA, March 2019.
    abstract ]
  • Using Clinical Notes to Assess the Exposure of Tobacco and Alcohol Use in the Electronic Health Record
    Jessica Chen, Abel Ermias, Cosmin A. Bejan
    American Medical Informatics Association (AMIA) Informatics Summit, San Francisco, CA, March 2019.
    abstract ]
  • Validation of a Natural Language Processing System to Identify Peripheral Artery Disease Cases from Clinical Narratives in 3 eMERGE sites
    Sungrim Moon, Uriel Sanchez Rangel, Naveed Afzal, Cosmin A. Bejan, Ning Shang, Sungwhan Sohn, Joshua C. Denny, George Hripcsak, Iftikhar J. Kullo, Hongfang Liu, Adelaide M. Arruda-Olson
    American Medical Informatics Association (AMIA) Informatics Summit, San Francisco, CA, March 2019.
    abstract ]
  • Medication Data Extraction Algorithms: A Foundation for Post-Marketing Population Pharmacokinetic and Pharmacodynamic Studies Using Electronic Health Records
    L Choi, HL Weeks, C Beck, CA Bejan, X Niu, RJ Carroll, SL Van Driest, KA Birdwell, CM Stein, JC Denny
    American Society for Clinical Pharmacology & Therapeutics (ASCPT) Annual Meeting, Washington DC, March 2019.
    abstract ]

2018
  • Next Generation Myelofibrosis Risk Analysis in the Electronic Health Record
    Andrew Sochacki*, Cosmin Adrian Bejan*, Shilin Zhao, Travis Spaulding, Thomas Stricker, Yaomin Xu, Michael R. Savona
    American Society of Hematology (ASH) Annual Meeting, San Diego, CA, December, 2018.
    abstract ] (*contributed equally)
  • Leveraging electronic health records to map the genetic and phenotypic complexity of preterm birth
    Abin Abraham, Cosmin Bejan, John Capra
    American Society of Human Genetics (ASHG) 2018 Annual Meeting, San Diego, CA, October, 2018.
    abstract ]
  • Large-scale text mining of kidney stone composition from electronic health records
    Ryan S. Hsi, Daniel J. Lee, Cosmin A. Bejan
    36th World Congress of Endourology (WCE), Paris, France, September, 2018.
    abstract ]
  • Mining kidney stone composition from millions of clinical notes within the electronic health record
    Ryan S. Hsi, Daniel J. Lee, Cosmin A. Bejan
    American Urological Association (AUA) Annual Meeting, San Francisco, CA, May, 2018.
    abstract ]
  • Identification of myelofibrosis from electronic health records with novel algorithms and JAKextractor
    Cosmin A. Bejan*, Andrew Sochacki*, Shilin Zhao, Yaomin Xu, Michael Savona
    American Association for Cancer Research (AACR) Annual Meeting, Chicago, IL, April, 2018.
    abstract ] (*contributed equally)
  • Phenome-Wide Associations of Homelessness in Electronic Health Records
    Jared M. Hendrickson, Joshua C. Denny, Cosmin A. Bejan
    American Medical Informatics Association (AMIA) Informatics Summit, San Francisco, CA, March, 2018.
    abstract ]

2017
  • Mining 100 million notes to find homelessness and adverse childhood experiences: 2 case studies of rare and severe social determinants of health in electronic health records
    Cosmin A. Bejan, John Angiolillo, Douglas Conway, Robertson Nash, Jana K. Shirey-Rice, Loren Lipworth, Robert M. Cronin, Jill Pulley, Sunil Kripalani, Shari Barkin, Kevin B. Johnson, Joshua C. Denny
    Journal of the American Medical Informatics Association (JAMIA), 2017.
    paper ]
  • Large-Scale Text Mining of Social Determinants from Electronic Health Records: Case Studies of Homelessness and Adverse Childhood Experiences
    Cosmin A. Bejan, John Angiolillo, Douglas Conway, Robertson Nash, Jana K. Shirey-Rice, Loren Lipworth, Robert M. Cronin, Jill Pulley, Sunil Kripalani, Shari Barkin, Kevin B. Johnson, Joshua C. Denny
    American Medical Informatics Association Fall Symposium (AMIA), Washington DC, November, 2017.
    podium abstract ]
  • A Simple and Efficient Method for the Management of Multiple Electronic Health Record-Driven Phenotype Projects
    Cosmin A. Bejan, Joshua C. Denny
    American Medical Informatics Association Fall Symposium (AMIA), Washington DC, November, 2017.
    abstract ]
  • Development of Specific Electronic Phenotypes for Severe Cutaneous Adverse Drug Reactions Facilitates Genetic Discovery
    Sarah Garon, Lincoln Shade, Michael I Derrick, Cosmin A. Bejan, Elizabeth J. Phillips
    Journal of Allergy and Clinical Immunology, 2017.
    abstract ]

2015
  • Desiderata for computable representations of electronic health records-driven phenotype algorithms
    Huan Mo, William K Thompson, Luke V Rasmussen, Jennifer A Pacheco, Guoqian Jiang, Richard Kiefer, Qian Zhu, Jie Xu, Enid Montague, David S Carrell, Todd Lingren, Frank D Mentch, Yizhao Ni, Firas H Wehbe, Peggy L Peissig, Gerard Tromp, Eric B Larson, Christopher G Chute, Jyotishman Pathak, Joshua C Denny, Peter Speltz, Abel N Kho, Gail P Jarvik, Cosmin A Bejan, Marc S Williams, Kenneth Borthwick, Terrie E Kitchner, Dan M Roden, Paul A Harris
    Journal of the American Medical Informatics Association (JAMIA), 2015.
    paper ]
  • Building bridges across electronic health record systems through inferred phenotypic topics
    You Chen, Joydeep Ghosh, Cosmin Adrian Bejan, Carl A. Gunter, Siddharth Gupta, Abel Kho, David Liebovitz, Jimeng Sun, Joshua Denny, Bradley Malin
    Journal of Biomedical Informatics (JBI), 2015.
    paper ]
  • Mining phenotypic keywords from a large collection of clinical narratives
    Cosmin Adrian Bejan, Robertson Nash, Douglas Conway, Erica A. Bowton, Kevin B. Johnson, Joshua C. Denny
    AMIA Summit on Clinical Research Informatics (AMIA-CRI), San Francisco, CA, USA, March 2015.
    podium abstract ]

2014
  • Cosmin Adrian Bejan, Wei-Qi Wei, Joshua C. Denny
    Assessing the role of a medication-indication resource in the treatment relation extraction from clinical textPMID: 25336593 ]
    Journal of the American Medical Informatics Association (JAMIA), 2014.
  • Cosmin Adrian Bejan, Joshua C. Denny
    Learning to Identify Treatment Relations in Clinical Textpdf ]
    American Medical Informatics Association Fall Symposium (AMIA), Washington DC, November, 2014.
  • Cosmin Adrian Bejan, Wei-Qi Wei, Joshua C. Denny
    Using SemRep and a medication indication resource to extract treatment relations from clinical notespdf ] (Podium Abstract)
    AMIA Summit on Translational Bioinformatics (AMIA-TBI), San Francisco, CA, USA, April 2014.
  • Cosmin Adrian Bejan, Sanda Harabagiu
    Unsupervised Event Coreference Resolutionpdf | data ]
    Computational Linguistics, 2014.

2013
  • Cosmin Adrian Bejan, Lucy Vanderwende, Heather L. Evans, Mark M. Wurfel, Meliha Yetisgen-Yildiz
    On-time clinical phenotype prediction based on narrative reportsPMID: 24551325 ]
    American Medical Informatics Association Fall Symposium (AMIA) , Washington DC, November, 2013.
    Distinguished Paper Award
  • Meliha Yetisgen-Yildiz, Cosmin Adrian Bejan, Mark M. Wurfel
    Identification of Patients with Acute Lung Injury from Free-Text Chest X-ray Reportspdf ]
    ACL workshop on Biomedical Natural Language Processing (BioNLP), Sofia, Bulgaria, August 2013.
  • Meliha Yetisgen-Yildiz, Cosmin Adrian Bejan, Lucy Vanderwende, Fei Xia, Heather L. Evans, Mark M. Wurfel
    Automated Tools for Phenotype Extraction from Medical Records (Abstract) [ PMID: 24303281 ]
    AMIA Summit on Clinical Research Informatics (AMIA-CRI), San Francisco, CA, USA, March 2013.
  • Cosmin Adrian Bejan, Lucy Vanderwende, Fei Xia, Meliha Yetisgen-Yildiz
    Assertion modeling and its role in clinical phenotype identificationcode | PMID: 23000479 ]
    Journal of Biomedical Informatics (JBI), 2013.

2012
  • Cosmin Adrian Bejan, Lucy Vanderwende, Mark M. Wurfel, Meliha Yetisgen-Yildiz
    Assessing Pneumonia Identification from Time-Ordered Narrative ReportsPMID: 23304388 ]
    American Medical Informatics Association Fall Symposium (AMIA) , Chicago, IL, USA, November 2012.
  • Cosmin Adrian Bejan, Lucy Vanderwende, Mark M Wurfel, Meliha Yetisgen-Yildiz
    Assessing Pneumonia Identification from Time-Ordered Narrative Reports (Poster)
    Pacific Northwest Regional NLP Workshop (NW-NLP), Microsoft Research, Redmond, WA, USA, May 2012.
  • Cosmin Adrian Bejan, Fei Xia, Lucy Vanderwende, Mark M Wurfel, Meliha Yetisgen-Yildiz
    Pneumonia identification using statistical feature selectionPMID: 22539080 ]
    Journal of the American Medical Informatics Association (JAMIA), 2012.
  • Heather Evans, Meliha Yetisgen-Yildiz, Cosmin Adrian Bejan, Keir Warner, Robert Black, Ronald Maier, Mark M. Wurfel
    Chest X-ray Report Language is Incongruous with Quantitative Culture Results in Ventilator-Associated Pneumonia (Abstract)
    Annual Meeting of the Surgical Infection Society (SIS), Dallas, TX, USA, April 2012.

2011
  • Andrew S. Gordon, Cosmin Adrian Bejan, Kenji Sagae
    Commonsense Causal Reasoning Using Millions of Personal Storiespdf ]
    AAAI Conference on Artificial Intelligence (AAAI), San Francisco, CA, USA, August 2011.
  • Melissa Roemmele, Cosmin Adrian Bejan, Andrew S. Gordon
    Choice of Plausible Alternatives: An Evaluation of Commonsense Causal Reasoningpdf ]
    AAAI Spring Symposium on Logical Formalizations of Commonsense Reasoning (Commonsense), Stanford University, Palo Alto, CA, USA, March 2011.
  • Kirk Roberts, Cosmin Adrian Bejan, Sanda Harabagiu
    Using Event Semantics for Toponym Disambiguation
    Applied Natural Language Processing: Identification, Investigation and Resolution, Philip M. McCarthy and Chutima Boonthum-Denecke (Eds.), IGI Global, 2011.
  • Bryan Rink, Cosmin Adrian Bejan, Sanda Harabagiu
    The Role of Textual Graph Patterns in Discovering Event Causality
    Applied Natural Language Processing: Identification, Investigation and Resolution, Philip M. McCarthy and Chutima Boonthum-Denecke (Eds.), IGI Global, 2011.

2010
  • Cosmin Adrian Bejan, Sanda Harabagiu
    Unsupervised Event Coreference Resolution with Rich Linguistic Featurespdf | data ]
    Annual Meeting of the Association for Computational Linguistics (ACL), Uppsala, Sweden, July 2010.
  • Kirk Roberts, Srikanth Gullapalli, Cosmin Adrian Bejan, Sanda Harabagiu
    A Linguistic Resource for Semantic Parsing of Motion Eventspdf ]
    International Conference on Language Resources and Evaluation (LREC), Valletta, Malta, May 2010.
  • Bryan Rink, Cosmin Adrian Bejan, Sanda Harabagiu
    Learning Textual Graph Patterns to Detect Causal Event Relationspdf ]
    Florida Artificial Intelligence Research Society International Conference (FLAIRS), Daytona Beach, FL, USA, May 2010.
    Best Paper in Track Award
  • Kirk Roberts, Cosmin Adrian Bejan, Sanda Harabagiu
    Toponym Disambiguation Using Eventspdf ]
    Florida Artificial Intelligence Research Society International Conference (FLAIRS), Daytona Beach, FL, USA, May 2010.
  • Sanda Harabagiu, Cosmin Adrian Bejan
    A Knowledge Extraction Framework for Biomedical Pathwayspdf | PMID: 21347132 ]
    AMIA Summit on Translational Bioinformatics (AMIA-STB), San Francisco, CA, USA, March 2010.

2009
  • Cosmin Adrian Bejan
    Learning Event Structures from Textpdf ]
    PhD Dissertation, The University of Texas at Dallas, December 2009.
  • Cosmin Adrian Bejan, Matthew Titsworth, Andy Hickl, Sanda Harabagiu
    Nonparametric Bayesian Models for Unsupervised Event Coreference Resolutionpdf | data ]
    Advances in Neural Information Processing Systems 23 (NIPS), Vancouver, Canada, December 2009.

2008
  • Cosmin Adrian Bejan, Sanda Harabagiu
    Using Clustering Methods for Discovering Event Structures (Abstract) [ pdf ]
    AAAI Conference on Artificial Intelligence (AAAI), Chicago, IL, USA, July 2008.
  • Cosmin Adrian Bejan, Sanda Harabagiu
    A Linguistic Resource for Discovering Event Structures and Resolving Event Coreferencepdf ]
    International Conference on Language Resources and Evaluation (LREC), Marrakech, Morocco, 2008.
  • Cosmin Adrian Bejan
    Unsupervised Discovery of Event Scenarios from Textspdf ]
    Florida Artificial Intelligence Research Society International Conference (FLAIRS), Coconut Grove, FL, USA, May 2008.
    Best Paper in Track Award
    Best Student Paper Award

2007
  • Cosmin Adrian Bejan, Chris Hathaway
    UTD-SRL: A Pipeline Architecture for Extracting Frame Semantic Structurespdf ]
    ACL workshop on on Semantic Evaluations (SemEval ), Prague, Czech Republic, June 2007.
  • Cosmin Adrian Bejan
    Deriving Chronological Information from Texts through a Graph-based Algorithm (Poster) [ pdf ]
    Florida Artificial Intelligence Research Society International Conference (FLAIRS), Key West, FL, USA, May 2007.

2006
  • Sanda Harabagiu, Cosmin Adrian Bejan
    An Answer Bank for Temporal Inferencepdf ]
    International Conference on Language Resources and Evaluation (LREC), Genoa, Italy, 2006.

2005
  • Sanda Harabagiu, Cosmin Adrian Bejan, Paul Morarescu
    Shallow Semantics for Relation Extractionpdf ]
    International Joint Conference on Artificial Intelligence (IJCAI), Edinburgh, Scotland, 2005.
  • Sanda Harabagiu, Cosmin Adrian Bejan
    Question Answering Based on Temporal Inferencepdf ]
    AAAI Workshop on Inference for Textual Question Answering, Pittsburgh, PA, USA, 2005.

2004
  • Cosmin Adrian Bejan, Alessandro Moschitti, Paul Morarescu, Gabriel Nicolae, Sanda Harabagiu
    Semantic Parsing Based on FrameNetpdf ]
    ACL workshop on the Evaluation of Systems for the Semantic Analysis of Text (SENSEVAL3), Barcelona, Spain, 2004.
    Best System of the Automatic Labeling of Semantic Roles Challenge
  • Alessandro Moschitti, Cosmin Adrian Bejan
    A Semantic Kernel for Predicate Argument Classificationpdf ]
    Conference on Computational Natural Language Learning (CoNLL), Boston, MA, USA, 2004.
  • Sanda Harabagiu, Steven Maiorano, Alessandro Moschitti, Cosmin Adrian Bejan
    Intentions, Implicatures and Processing of Complex Questionspdf ]
    HLT-NAACL Workshop on Pragmatics of Question Answering, Boston, MA, USA, 2004.