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  • Callaghan F, Jackson MT, Demner-Fushman D, Abhyankar S, McDonald C. Analysis of data that has been extracted from free-text using natural language processing: a likelihood model for misclassification with an application to medical informatics. International Conference on Advances in Interdisciplinary Statistics and Combinatorics (AISC2012), Greensboro, NC, October 2012
  • Callaghan F, Jackson MT, Demner-Fushman D, Abhyankar S, McDonald CJ. NLP-derived information improves the estimates of risk of disease compared to estimates based on manually extracted data alone. 5th International Symposium on Semantic Mining in Biomedicine (SMBM 2012), 2012 Sept 3-4, Zurich, Switzerland.
  • Callaghan F, Demner-Fushman D, Abhyankar S, McDonald CJ. Addressing errors in a retrospective observational ICU database [poster]. AMIA 2011 Fall Symposium.
  • Cameron D, Bodenreider O, Yalamanchili H, Danh T, Vallabhaneni S, Thirunarayan K, Sheth AP, Rindflesch TC. A graph-based recovery and decomposition of Swanson's hypothesis using semantic predications. J Biomed Inform. 2013 Apr;46(2):238-51. doi: 10.1016/j.jbi.2012.09.004. Epub 2012 Sep 28.
  • Cameron D, Kavuluru R, Bodenreider O, Mendes PN, Sheth AP, Thirunarayan K. Semantic predications for complex information needs in biomedical literature BIBM 2011:512-519.
  • Campbell JR, Xu J, Fung K. Can SNOMED CT fulfill the vision of a compositional terminology? Analyzing the use case for problem list. AMIA Annu Symp Proc. 2011;2011:181-8. Epub 2011 Oct 22.
  • Cantor MN, Sarkar INK, Bodenreider O, Lussier YA. GenesTrace: Phenomic Knowledge Discovery Via Structured Terminologies Pac Symp Biocomput. 2005:103-14.
  • Cantor MN, SI N, Hartel F, Bodenreider O, Lussier YA. An Evaluation of Hybrid Methods for Matching Biomedical Terminologies: Mapping the Gene Ontology to the UMLS Stud Health Technol Inform. 2003;:62-67.
  • Cardenas I, Marcelo AB, Fontelo P. Development of a health informatics community-generated, open-source controlled medical vocabulary. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2010 Nov 13-17; Washington DC. p. 998.
  • Cardillo E, Hernandez, Jr G, Bodenreider O. Integrating consumer-oriented vocabularies with selected professional ones from the UMLS using Semantic Web Technologies. Proceedings of the eHealth 2010 conference, 2010: p. (paper 10579 - electronic proceedings).
  • Chakrabarti S, Sen A, Huser V, Hruby GW, Rusanova A, Albers DJ, Weng C. An Interoperable Similarity-based Cohort Identification Method Using the OMOP Common Data Model version 5.0. J Healthc Inform Res. 2017 Jun;1(1):1-18. doi: 10.1007/s41666-017-0005-6. Epub 2017 Jun 8.
  • Chen Y, Gu H, Perl Y, Halper M, Xu J. Expanding the extent of a UMLS semantic type via group neighborhood auditing. J Am Med Inform Assoc. 2009 Sep-Oct;16(5):746-57. doi: 10.1197/jamia.M2951. Epub 2009 Jun 30.
  • Christensen JD, Hutchins GC, McDonald CJ. Computer automated detection of head orientation for prevention of wrong-side treatment errors. AMIA Annu Symp Proc. 2006:136-40.
  • Cimino J, Jing X, Del Fiol G. Meeting the electronic health record "meaningful use" criterion for the HL7 infobutton standard using OpenInfobutton and the Librarian Infobutton Tailoring Environment (LITE). AMIA Annu Symp Proc. 2012;2012:112-20. Epub 2012 Nov 3.
  • Cimino JJ, Huser V. Characterization of the Context of Drug Concepts in Research Protocols: An Empiric Study to Guide Ontology Development. AMIA Annu Symp Proc. 2015 Nov 5;2015:441-7. eCollection 2015.
  • Cimino JJ, Ayres EJ, Remennik L, Rath S, Freedman R, Beri A, Chen Y, Huser V. The National Institutes of Health's Biomedical Translational Research Information System (BTRIS): design, contents, functionality and experience to date. J Biomed Inform. 2014 Dec;52:11-27. doi: 10.1016/j.jbi.2013.11.004. Epub 2013 Nov 19.
  • Cimino JJ, Remennick L. Adapting a Clinical Data Repository to ICD-10-CM through the use of a Terminology Repository. AMIA Annu Symp Proc. 2014 Nov 14;2014:405-13. eCollection 2014.
  • Cimino JJ, Overby CL, Devine EB, Hulse NC, Jing X, Maviglia SM, Del Fiol G. Practical choices for infobutton customization: experience from four sites. AMIA Annu Symp Proc. 2013 Nov 16;2013:236-45. eCollection 2013.
  • Cimino JJ, Ayres EJ, Beri A, Freedman R, Oberholtzer E, Rath S. Developing a self-service query interface for re-using de-identified electronic health record data. Stud Health Technol Inform. 2013;192:632-6.
  • Cimino JJ. The contribution of observational studies and clinical context information for guiding the integration of infobuttons into clinical information systems. AMIA Annu Symp Proc. 2009 Nov 14;2009:109-13.
  • Cimino JJ, Hayamizu TF, Bodenreider O, Davis B, Stafford GA, Ringwald M. The caBIG terminology review process. J Biomed Inform. 2009 Jun;42(3):571-80. doi: 10.1016/j.jbi.2008.12.003. Epub 2008 Dec 25.
  • Clark DO, Kroenke K, Callahan CM, McDonald CJ. Validity and utility of patient-reported health measures on hospital admission. J Clin Epidemiol. 1999 Jan;52(1):65-71.
  • Cohen T, Roberts K, Gururaj AE, Chen X, Pournejati S, Alter G, Hersh WR, Demner-Fushman D, Ohno-Machado L, Lu H. A publicly available benchmark for biomedical dataset retrieval: the reference standard for the 2016 bioCADDIE dataset retrieval challenge. Database (Oxford). 2017 Jan 1;2017. doi: 10.1093/database/bax061.
  • Collins SA, Currie LM, Bakken S, Cimino JJ. Information needs, infobutton manager use, and satisfaction by clinician type: a case study. J Am Med Inform Assoc. 2009 Jan-Feb;16(1):140-2. Epub 2008 Oct 24.
  • Crowell J, Zeng QT, Tse T. A Web Application to Support Consumer Health Vocabulary Development AMIA Annu Symp Proc. 2005:932
  • Cui L, Bodenreider O, Shi J, Zhang GQ. Auditing SNOMED CT hierarchical relations based on lexical features of concepts in non-lattice subgraphs. Biomed Inform. 2018 Feb;78:177-184. doi: 10.1016/j.jbi.2017.12.010. Epub 2017 Dec 20.
  • Cui L, Zhu W, Tao S, Case JT, Bodenreider O, Zhang GQ. Mining non-lattice subgraphs for detecting missing hierarchical relations and concepts in SNOMED CT. J Am Med Inform Assoc. 2017 Jul 1;24(4):788-798. doi: 10.1093/jamia/ocw175.
  • Del Fiol G, Curtis C, Cimino J, Iskander A, Kalluri AS, Jing X, Hulse NC, Long J, Overby CL, Schardt C, Douglas DM. Disseminating context-specific access to online knowledge resources within electronic health record systems. Stud Health Technol Inform. 2013;192:672-6.
  • Del Fiol G, Huser V, Strasberg HR, Maviglia SM, Curtis C, Cimino JJ. Implementations of the HL7 Context-Aware Knowledge Retrieval ("Infobutton") Standard: challenges, strengths, limitations, and uptake. J Biomed Inform. 2012 Aug;45(4):726-35. doi: 10.1016/j.jbi.2011.12.006.. Epub 2012 Jan 2.
  • Demner-Fushman D, Kohli MD, Rosenman MB, Shooshan SE, Rodriguez L, Antani S, Thoma GR, McDonald CJ. Preparing a collection of radiology examinations for distribution and retrieval. J Am Med Inform Assoc. 2016 Mar;23(2):304-10. doi: 10.1093/jamia/ocv080. Epub 2015 Jul 1.
  • Demner-Fushman D, Seckman C, Fisher C, Thoma GR. Continual development of a personalized decision support system. Stud Health Technol Inform. 2013;192:175-9.
  • Demner-Fushman D, Abhyankar S, Callaghan FM, McDonald CJ. Extracting sources of admission and discharge destinations from discharge summaries [Poster]. AMIA 2011 Fall Symposium.
  • Demner-Fushman D, Karpinski J, Thoma GR. Automatically building a repository to support evidence-based practice. Proceedings of the 2nd Workshop on Building and evaluating resources for biomedical text mining (BioTxtM 2010), 7th Language Resources and Evaluation Conference (LREC 2010). Valetta, Malta. May 2010.
  • Demner-Fushman D, Chapman WW, McDonald CJ. What can natural language processing do for clinical decision support? J Biomed Inform. 2009 Oct;42(5):760-72. doi: 10.1016/j.jbi.2009.08.007. Epub 2009 Aug 13.
  • Demner-Fushman D, Ananiadou S, Cohen KB, Pestian J, Tsujii J, Webber B. Themes in biomedical natural language processing: BioNLP08 BMC Bioinformatics. 2008 Nov 19;9 Suppl 11:S1.
  • Demner-Fushman D, Seckman C, Fisher C, Hauser SE, Clayton J, Thoma GR. A prototype system to support evidence-based practice AMIA Annu Symp Proc. 2008 Nov 6:151-5.
  • Demner-Fushman D, Humphrey SM, Ide NC, Loane RF, Ruch P, Ruiz ME, Smith LH, Tanabe LK, Wilbur WJ, Aronson AR. Finding Relevant Passages in Scientific Articles: Fusion of Automatic Approaches vs. an Interactive Team Effort. Proc TREC 2006, 569-76.
  • Demner-Fushman D, Hauser SE, Thoma GR. The role of title, metadata and abstract in identifying clinically relevant journal articles. AMIA Annu Symp Proc. 2005:191-5.
  • Demner-Fushman D, Hauser SE, Ford G, Thoma GR. Organizing Literature Information for Clinical Decision Support Stud Health Technol Inform. 2004;107(Pt 1):602-6.
  • Dexter PR, Perkins SM, Maharry KS, Jones K, McDonald CJ. Inpatient computer-based standing orders vs physician reminders to increase influenza and pneumococcal vaccination rates: a randomized trial. JAMA. 2004 Nov 17;292(19):2366-71.
  • Dexter PR, Perkins S, Overhage JM, Maharry K, Kohler RB, McDonald CJ. A computerized reminder system to increase the use of preventive care for hospitalized patients. N Engl J Med. 2001 Sep 27;345(13):965-70.
  • Dhombres F, Bodenreider O. Trends in Fetal Medicine: A 10-Year Bibliometric Analysis of Prenatal Diagnosis. Stud Health Technol Inform. 2017;245:853-857.
  • Dhombres F, Bodenreider O. Interoperability between phenotypes in research and healthcare terminologies--Investigating partial mappings between HPO and SNOMED CT. J Biomed Semantics. 2016 Feb 9;7:3. doi: 10.1186/s13326-016-0047-3. eCollection 2016.
  • Dhombres F, Bodenreider O. Investigating the lexico-syntactic properties of phenotype terms – Application to interoperability between HPO and SNOMED CT. Proc Joint Bio-Ontologies and BioLINK ISMB'2015 SIG session "Phenotype Day" 2015:8-11.
  • Dhombres F, Winnenburg R, Case JT, Bodenreider O. Extending the coverage of phenotypes in SNOMED CT through post-coordination. Stud Health Technol Inform. 2015;216:795-9.
  • Doughty E, Kirk B, Kann MG, Bodenreider O. Integrating Drug-gene Associations Mined from the Literature with Drug Information Sources - A Comparison with PharmGKB Proceedings of the 2011 PSB Workshop on Mining the Pharmacogenomics Literature 2011
  • Doughty E, Kertesz-Farkas A, Bodenreider O, Thompson G, Adadey A, Peterson T, Kann MG. Toward an automatic method for extracting cancer- and other disease-related point mutations from the biomedical literature. Bioinformatics. 2011 Feb 1;27(3):408-15. doi: 10.1093/bioinformatics/btq667. Epub 2010 Dec 7.
  • Downs SM, van Dyck PC, Rinaldo P, McDonald CJ, Howell RR, Zuckerman A, Downing G. Improving newborn screening laboratory test ordering and result reporting using health information exchange. J Am Med Inform Assoc. 2010 Jan-Feb;17(1):13-8. doi: 10.1197/jamia.M3295.
  • Drake TA, Braun J, Marchevsky A, Kohan IS, Fletcher C, Chueh H, Beckwith B, Berkowicz D, Kuo F, Zeng QT, Balis U, Holzbach A, McMurry A, Gee CE, McDonald C, Schadow G, Davis M, Hattab EM, Blevins L, Hook J, Becich M, Crowley RS, Taube SE, Berman J. A System for Sharing Routine Surgical Pathology Specimens Across Institutions: The Shared Pathology Informatics Network Hum Pathol. 2007 Aug;38(8):1212-25. Epub 2007 May 8
  • Driessen J, Baik SH, Zhang Y. Trends in Off-Label Use of Second-Generation Antipsychotics in the Medicare Population From 2006 to 2012. Psychiatr Serv. 2016 Aug 1;67(8):898-903. doi: 10.1176/appi.ps.201500316. Epub 2016 Apr 15.

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