| National Library of Medicine

McDonald CJ, Maglott D, Abhyankar S, Goodwin RM, Kanduru A, Lu S, Lynch P, Vreeman D, Wang Y, Wood G. US Realm, Chapter 14, Use Case – Clinical Genomics Code Systems. in HL7 Version 2.5.1 Implementation Guide: Lab Results Interface (LRI), DTSU3. HL7 International (Ann Arbor).

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McDonald CJ, Maglott D, Abhyankar S, Goodwin RM, Kanduru A, Lu S, Lynch P, Vreeman D, Wang Y, Wood G. US Realm, Chapter 5, Use Case – Clinical Genomics Results Reporting in HL7 Version 2.5.1 Implementation Guide: Lab Results Interface (LRI), DTSU3. HL7 International (Ann Arbor).

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McDonald CJ. Logical Observation Identifiers Names and Codes for In Vitro Diagnostic Test; Guidance for Industry and Food and Drug Administration Staff. Silver Spring, Md: Center for Devices and Radiological Health, FDA, 2018.

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Bodenreider O. Evaluating the Quality and Interoperability of Biomedical Terminologies Technical Report to the LHNCBC Board of Scientific Counselors April 2018

Abstract | pub9754.pdf

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Tang P, McDonald CJ. Computer-Based Patient-Record Systems - Chapter 9. In Shortliffe E, Perreault L, eds. Medical Informatics. New York: springer. 2001:327-358. DOI: 10.1007/978-0-387-21721-5_9.

Abstract | pub9718.pdf

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McDonald CJ. Top LOINC Codes – Orders and Observations

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Fung K. Medical Terminologies in Action Technical Report to the LHNCBC Board of Scientific Counselors September 2017

Abstract | BOSC report_Sept 2017_FUNG_noCVb.pdf

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Kilicoglu H. Dataset: Sortal Anaphora Dataset

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Demner-Fushman D, Mork JG. NLM Medical Text Indexer Technical Report to the LHNCBC Board of Scientific Counselors April 2016

Abstract | pub9359.pdf

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Bodenreider O, Winnenburg R. Drug Terminology and Ontology Integration -- Dissemination, Quality Assurance and Applications. September 2014 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | Tech_Report_Sep14.pdf

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McDonald CJ, Tang PC, Hripcsak G. Electronic Health Record Systems. . In: Shortliffe EH, Cimino JJ, editors. Biomedical Informatics: Computer Applications in Healthcare and Biomedicine 4th ED [Internet]. London: Springer London; 2014. p. 391–421. Available from: http://link.springer.com/10.1007/978-1-4471-4474-8.

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Bodenreider O. Disease Ontologies In: Dubitzky W, Wolkenhauer O, Cho K-H, Yokota H, editors. Encyclopedia of Systems Biology: Springer; 2013. p. 578-581.

Abstract | pub2011017.pdf

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Kayaalp M, Browne AC, Dodd Z, Sagan P, McDonald CJ. Clinical Text De-Identification Research September 2013 Technical Report to the LHNCBC Board of Scientific Counselors

Abstract | 6932.pdf

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Cimino JJ. Tutorial: meeting data access and reporting requirements with the NIH’s Biomedical Translational Research Information System (BTRIS).

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Fung K. Dataset: SNOMED CT to ICD-10 Cross Map

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Fung KW, Bodenreider O. Knowledge representation and ontologies. Richesson RL, Andrews JE (Eds.). Clinical Research Informatics, Health Informatics, DOI 10.1007/978-1-84882-448-5_14, Springer-Verlag London Limited Publishing 2012.

Abstract | pub2012015.pdf

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Bodenreider O. API: Prescribable

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Rindflesch TC, Fiszman M, Kilicoglu H, Rosemblat G, Shin D, Cairelli M, Chen G, Miller CM, Workman E. Semantic Knowledge Representation Project: Advanced Information Management for Biomedical Research September 2012 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2012002.pdf

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Fung K. Dataset: SNOMED CT to ICD-10-CM Map

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McDonald CJ, Vreeman D, Goodwin RM. Dataset: LOINC Top 2000+ Lab Observations and Mapper's Guide

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Fung KW. Dataset: ICD-9-CM to SNOMED CT Map

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Abhyankar S, Goodwin RM, Zuckerman A, McDonald CJ. Dataset: newborn screening results annotated example HL7 electronic message guidance (v 5.2).

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Abhyankar S, Goodwin RM, Zuckerman AE, McDonald CJ. Dataset: Newborn screening LOINC panel.

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Abhyankar S, Goodwin RM, Zuckerman AE, McDonald CJ. Dataset: newborn screening LOINC codes (AHIC panel).

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McDonald CJ, Abhyankar S, Taft L. Dataset: common units of measure - subset of the Unified Code for Units of Measure.

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McDonald C, Vreeman D, Goodwin RM. Dataset: LOINC Top 300+ Lab Orders

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Simpson MS, Demner-Fushman D. Biomedical Text Mining: A Survey of Recent Progress. In Charu C. Aggarwal and ChengXiang Zhai, Editors. Mining Text Data. (Springer) 2011.

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Fung KW. Dataset: Nursing Problem List Subset of SNOMED CT

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McDonald CJ, Abhyankar S. Moving, merging, managing, and mining clinical data for care and research. April 2011 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2011001.pdf

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Mork JG, Aronson AR. The Medical Text Indexer (MTI) system for indexing biomedical literature. book chapter submitted to monograph Indexing Specialities: Medicine. Edited by L. Pilar Wyman. Medford, NJ: Information Today, Inc., in association with the American Society of Indexers, Phoenix, AZ. 2010.

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Fung KW. API: RxTerms

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Fung KW. Dataset: SNOMED CT route of administration subset.

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Bodenreider O. Quality Assurance in Biomedical Terminologies and Ontologies April 2010 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2010001.pdf

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Fung KW. Dataset: CORE problem list of SNOMED CT.

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Fung KW. Applied Medical Terminology Research April 2009 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2009001.pdf

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McDonald CJ, Hill G. IUPAC Silver Book- Compendium of Terminology and Nomenclature of Properties in Clinical Laboratory Sciences - Chapter 8 - Kinds-of-Quantity of Dimension One. SI Unit 1. Royal Society of Chemistry; 2009. doi:10.1039/978178262245.1-00075.

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Hristovski D, Kastrin A, Peterlin B, Rindflesch TC. Combining Semantic Relations and DNA Microarray Data for Novel Hypotheses Generation Lecture Notes in Bioinformatics. Springer

Abstract | pub2009060.pdf

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Zweigenbaum P, Demner-Fushman D. Bioinformatics: Tools and Applications. Springer 2009.

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Bodenreider O. Biomedical Ontologies in Action: Role in Knowledge Management, Data Integration and Decision Support. Geissbuhler A, Kulikowski C, editors. IMIA Yearbook of Medical Informatics 2008. Methods Inf Med, 2008. 47(Suppl 1): p. 67-79.

Abstract | PMID: 18660879 | PMCID: PMC2592252

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Aronson AR, Mork JG, Lang FM, Rogers WJ, Neveol A. NLM Medical Text Indexer: A Tool for Automatic and Assisted Indexing April 2008 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2008002.pdf

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McDonald C. Dataset: LOINC Panels and Forms file

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Kayaalp M. Separation of Data, Interpreters and Likelihood March 2007 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2007001.pdf

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Lussier YA, Bodenreider O. Clinical Ontologies for Discovery Applications In: Baker CJO, Cheung K-H, editors. Semantic Web: Revolutionizing knowledge discovery in the life sciences. New York: Springer; 2007. p. 101-119.

Abstract | pub2007012.pdf

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He Y, Kayaalp M. A Comparison of 13 Tokenizers on MEDLINE December 2006 Technical Report.

Abstract | tr2006003.pdf

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Aronson AR. API: Semantic Knowledge Representation

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Bodenreider O, Rindflesch TC. Advanced Library Services: Developing a Biomedical Knowledge Repository to Support Advanced Information Management Applications September 2006 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2006001.pdf

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Azuaje F, Wang H, Bodenreider O. Ontology-driven Similarity Approaches to Supporting Gene Functional Assessment Proceedings of the ISMB'2005 SIG meeting on Bio-ontologies 2005:9-10

Abstract | pub2005024.pdf

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McCray AT, Bodenreider O. A Conceptual Framework for the Biomedical Domain The Semantics of Relationships: An Interdisciplinary Perspective. Boston: Kluwer Academic Publishers. 2002;:181-198.

Abstract | pub2002029.pdf

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Brown AC, Divita G, Lu C, McCreedy L, Nace D. Lexical Systems: A Report to the Board of Scientific Counselors September 2003 Technical Report to the LHNCBC Board of Scientific Counselors.

Abstract | tr2003003.pdf

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Bodenreider O, Bean CA. Relationships Among Knowledge Structures: Vocabulary Integration Within a Subject Domain. In: Bean A, Green R, editors. Relationships in the organization of knowledge. Springer; 2001. pp. 81-98.

Abstract | pub2001024.pdf

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