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  • Mork JG, Aronson A, Demner-Fushman D. 12 years on - Is the NLM medical text indexer still useful and relevant? J Biomed Semantics. 2017 Feb 23;8(1):8. doi: 10.1186/s13326-017-0113-5.
  • Leroy G, Miller T, Rosemblat G, Browne A. A Balanced Approach to Health Information Evaluation: A Vocabulary-based Naive Bayes Classifier and Readability Formulas JASIST, 59(9):1409-1419, 2008
  • Locatis C, Gaines C, Liu W, Gill MJ, Carney J, Foster J, McCall V, Woods M. A Blended Training Approach Using Videoconferencing for Distance Education. J Med Libr Assoc. 2006 Oct;94(4):464-8.
  • Jimeno-Yepes A, Wilkowski B, Mork J, van Lenten E, Demner-Fushman D, Aronson AR. A bottom-up approach to MEDLINE indexing recommendations. AMIA Annu Symp Proc. 2011;2011:1583-92. Epub 2011 Oct 22.
  • Rahman MM, Antani SK, Thoma GR. A Classification-Driven Similarity Matching Framework For Retrieval of Biomedical Images. 11th ACM International Conference on Multimedia Information Retrieval (MIR 2010). 2010:147-154.
  • Miller CM, Rindflesch TC, Fiszman M, Hristovski D, Shin D, Rosemblat G, Zhang H, Strohl KP. A closed literature-based discovery technique finds a mechanistic link between hypogonadism and diminished sleep quality in aging men. Sleep. 2012 Feb 1;35(2):279-85. doi: 10.5665/sleep.1640.
  • He Y, Kayaalp M. A Comparison of 13 Tokenizers on MEDLINE December 2006 Technical Report.
  • Marcelo A, Gavino A, Isip-Tan IT, Apostol-Nicodemus L, Mesa-Gaerlan FJ, Firaza PN, Faustorilla JF Jr., Callaghan FM, Fontelo P. A comparison of the accuracy of clinical decisions based on full-text articles and on journal abstracts alone: a study among residents in a tertiary care hospital. Evid Based Med. 2013 Apr;18(2):48-53. doi: 10.1136/eb-2012-100537. Epub 2012 Jul 10.
  • Kilicoglu H, Rosemblat G, Cairelli M, Rindflesch TC. A Compositional Interpretation of Biomedical Event Factuality. Proc of the Second Workshop on Extra-Propositional Aspects of Meaning in Computational Semantics (ExProM 2015).
  • Bakker TA, Ryce AN, Logan RA, Tse T, Hutcherson LY. A Consumer Health Informatics (CHI) Toolbox: Challenges and Implications AMIA Annu Symp Proc. 2005:21-5
  • Sarmiento RF, Liu F, Fontelo P. A Cross-Language Mobile Resource for Accessing MEDLINE/PubMed Based on an Open-Source, Crowdsourced Controlled Medical Vocabulary for the Philippines. Journal of Mobile Technology in Medicine. 2012 Dec;1:4S:28. DOI: 10.7309/jmtm.50.
  • Demner-Fushman D. A dataset of 200 structured product labels annotated for adverse drug reactions. Sci Data. 2018 Jan 30;5:180001. doi: 10.1038/sdata.2018.1.
  • Lau JJ, Gayen S, Ben Abacha A, Demner-Fushman D. A dataset of clinically generated visual questions and answers about radiology images. Sci Data. 2018 Nov 20;5:180251. doi: 10.1038/sdata.2018.251.
  • Mao S, Kim J, Thoma G. A Dynamic Feature Generation System for Automated Metadata Extraction in Preservation of Digital Materials Proc. International Workshop on Document Image Analysis for Libraries (DIAL2004). 2004 Jan;: 225-32.
  • Sharp M, Bodenreider O, Wacholder N. A Framework for Characterizing Drug Information Sources AMIA Annu Symp Proc. 2008 Nov 6:662-6
  • Locatis CN, Conde JG, Bhagwat MA. A Hands-on Distance Learning Strategy to Increase Access to Bioinformatics Training [Poster]. Research Centers in Minority Institutions (RCMI): 13th RCMI International Symposium on Health Disparities; 2012 Dec 9-13; San Juan, Puerto Rico.
  • Rae A, Savery M, Mork JG, Demner-Fushman D. A High Recall Classifier for Selecting Articles for MEDLINE Indexing. AMIA Fall Symposium, 2019.
  • Chachra S, Ben Abacha A, Shooshan SE, Rodriguez L, Demner-Fushman D. A Hybrid Approach to Generation of Missing Abstracts in Biomedical Literature. Proceedings of COLING 2016, the 26th International Conference on Computational Linguistics: Technical Papers: 1093-1100.
  • Fiszman M, Shin D, Sneiderman CA, Jin H, Rindflesch TC. A Knowledge Intensive Approach to Mapping Clinical Narrative to LOINC. AMIA Annu Symp Proc. 2010 Nov 13;2010:227-31.
  • Simpson M, Ford G, Antani S, Demner-Fushman D, Thoma GR. A Lightweight Statistics Package for Interactive Publications Poster at 20th NIH Research Festival (TECH-15), September 2007, National Institutes of Health
  • Workman TE, Rosemblat G, Fiszman M, Rindflesch TC. A literature-based assessment of concept pairs as a measure of semantic relatedness. AMIA Annu Symp Proc. 2013 Nov 16;2013:1512-21. eCollection 2013.
  • Lu C, Humphrey SM, Browne AC. A method for verifying a vector-based text classification system AMIA Annu Symp Proc. 2008 Nov 6:1030.
  • Rosemblat G, Shin D, Kilicoglu H, Sneiderman C, Rindflesch TC. A methodology for extending domain coverage in SemRep. J Biomed Inform. 2013 Dec;46(6):1099-107. doi: 10.1016/j.jbi.2013.08.005. Epub 2013 Aug 21.
  • Logan RA, Tse T. A Multidiscipline Conceptual Framework for Consumer Health Informatics Stud Health Technol Inform. 2007;129(Pt 2):1169-73
  • Bashyam V, Divita G, Bennett DB, Browne AC, Taira RK. A normalized lexical lookup approach to identifying UMLS concepts in free text. Stud Health Technol Inform. 2007;129(Pt 1):545-9.
  • Fontelo P, Liu F. A novel tool for translational research discovery. Clin Transl Sci. 2009 Dec;2(6):391. doi: 10.1111/j.1752-8062.2009.00139.x.
  • Jimeno-Yepes A, Mork J, Demner-Fushman D, Aronson AR. A one-size-fits-all indexing method does not exist: automatic selection based on meta-learning. JCSE, vol. 6, no. 2, pp.151-160, 2012.
  • Rosemblat G, Graham L. A Pragmatic Approach to Summary Extraction in Clinical Trials Proc HLT-NAACL 06, pages 124-125, New York City, June 2006
  • Deardorff A, Masterton K, Roberts K, Kilicoglu H, Demner-Fushman D. A protocol-driven approach to automatically finding authoritative answers to consumer health questions in online resources. JASIST, 68(7): 1724-1736. doi: 10.1002/asi.23806.
  • Rossi E, Fontelo P, Ackerman M, Pozzi G, Marceglia S. A Prototype of Mobile app/EHR Communication through Standards for Home Treatment of Transcranial Direct Current Stimulation. International Conference on Healthcare Informatics (ICHI), Dallas TX, 2015. 310-315.
  • Ben Abacha A, Demner-Fushman D. A Question-Entailment Approach to Question Answering. arXiv:1901.08079.
  • Névéol A, Shooshan SE, Humphrey SM, Mork JG, Aronson AR. A recent advance in the automatic indexing of the biomedical literature. J Biomed Inform. 2009 Oct;42(5):814-23. doi: 10.1016/j.jbi.2008.12.007. Epub 2008 Dec 30.
  • Osborne R, Aronson A, Cohen K. A repository of semantic types in the MIMIC II database clinical notes. BioNLP 2014. pp. 93-97.
  • Ripple AM, Mork JG, Humphreys BL, Knecht LS. A retrospective cohort study of structured abstracts in MEDLINE, 1992-2006. J Med Libr Assoc. 2011 Apr;99(2):160-3. doi: 10.3163/1536-5050.99.2.009.
  • Zhang X, Zou J, Le DX, Thoma GR. A Semi-supervised Learning Method to Classify Grant Support Zone in Web-based Medical Articles Proc SPIE Electronic Imaging Science and Technology, Document Recognition and Retrieval. January 2009;7247:7247 OW(1-8)
  • Friedlin FJ, McDonald C. A Software Tool for Removing Patient Identifying Information from Clinical Documents J Am Med Inform Assoc. 2008 Sep-Oct;15(5):601-10. Epub 2008 Jun 25
  • Zhang X, Zou J, Le DX, Thoma GR. A Stacked Sequential Learning Method For Investigator Name Recognition From Web-based Medical Articles 17th Document Recognition and Retrieval Conference (SPIE-DR&R). San Jose, CA. January 2010;7534:753404-7
  • Marceglia S, Fontelo P, Rossi E, Ackerman MJ. A Standards-Based Architecture Proposal for Integrating Patient mHealth Apps to Electronic Health Record Systems. Appl Clin Inform. 2015 Aug 5;6(3):488-505. doi: 10.4338/ACI-2014-12-RA-0115. eCollection 2015.
  • Lowekamp B, Chen D. A Streaming IO Base Class and Support for Streaming the MRC and VTK File Format. Insight Journal. Web. 2010 Jun 9.
  • Zhang X, Zou J, Le DX, Thoma GR. A structural SVM approach for reference parsing. BMC Bioinformatics. 2011 Jun 9;12 Suppl 3:S7. doi: 10.1186/1471-2105-12-S3-S7.
  • Liu H, Aronson AR, Friedman C. A Study of Abbreviations in MEDLINE Abstracts AMIA Annu Symp. 2002 ;():464-8.
  • Leroy G, Rindflesch TC, Libbus B, Kilicoglu H, Chen H. A Syntactic Parser with Semantic Filtering for Biomedical Text. Proceedings of Pacific Symposium on Biocomputing.
  • Lu C, Tormey D, McCreedy L, Browne AC. A Systematic Approach for Automatically Generating Derivational Variants in Lexical Tools Based on the SPECIALIST Lexicon. IEEE IT Professional Magazine, May/June, 2012, p. 36-42.
  • Lu C, McCreedy L, Tormey D, Browne AC. A Systematic Approach for Automatically Generating Derivational Variants in Lexical Tools Based on theSPECIALIST Lexicon IEEE IT Professional Magazine, May/June, 2012;36-42.
  • Gavino AI, Tolentino PA, Bernal AB, Fontelo P, Marcelo AB. A Telemedicine Program Utilizing Short Message Service (SMS) for Remote Village Doctors. Mobile eHealth solutions for Developing Countries, International Telecommunication Union. 2010:94-98.
  • Zeng Q, Kin E, Crowell J, Tse T. A Text Corpora-Based Estimation of the Familiarity of Health Terminology ISBMD, Aveiro, Portugal, 10-11 November 2005:184-92.
  • Harpaz R, Odgers D, Gaskin G, DuMouchel W, Winnenburg R, Bodenreider O, Ripple AM, Szarfman A, Sorbello A, Horvitz E, White RW, Shah NH. A time-indexed reference standard of adverse drug reactions. Sci Data. 2014 Nov 11;1:140043. doi: 10.1038/sdata.2014.43.
  • Tolentino HD, Matters MD, Walop W, Law B, Tong W, Liu F, Fontelo P, Kohl K, Payne DC. A UMLS-based Spell Checker for Natural Language Processing in Vaccine Safety. BMC Med Inform Decis Mak. 2007 Feb 12;7:3. DOI: 10.1186/1472-6947-7-3.
  • Locatis C, Vega A, Bhagwat M, Liu W, Conde J. A Virtual Computer Lab for Distance Biomedical Technology Education. BMC Med Educ. 2008 Mar 13;8:12. DOI: 10.1186/1472-6920-8-12.
  • Fiszman M, Rindflesch TC, Kilicoglu H. Abstraction Summarization for Managing the Biomedical Research Literature Proceedings of the HLT-NAACL Workshop on Computational Lexical Semantics. 2004;:76-83.
  • Fontelo P, Nahin A, Liu F, Kim G, Ackerman MJ. Accessing MEDLINE/PubMed with Handheld Devices: Developments and New Search Portals. Proceedings of 38th Hawaii International Conference on System Sciences; 2005 Jan 3-6; Big Island, Hawaii; Track 6:158b. DOI Bookmark: http://doi.ieeecomputersociety.org/10.1109/HICSS.2005.64.
  • Rosemblat G, Tse T, Gemoets D. Adapting A Monolingual Consumer Health System for Cross-Language Information Retrieval Advances in Knowledge Organization, Proceedings of the Eighth International ISKO Conference. 2004 July;9:315-321.
  • Keselman A, Rosemblat G, Kilicoglu H, Fiszman M, Jin H, Shin D, Rindflesch TC. Adapting Semantic Natural Language Processing Technology to Address Information Overload in Influenza Epidemic Management Journal of the American Society for Information Science and Technology (JASIST), 61(12):2531-2543, 2010
  • Ackerman MJ. Adopting New Technology Into Society: Going From an Idea to an Institution. Public Policy and Aging Report. 2004;14(1):25.
  • Zweigenbaum P, Demner-Fushman D. Advanced Literature-Mining Tools. In Edwards D, Stajich J, and Hansen D. (Editors). Bioinformatics: Tools and Applications. Springer 2009.
  • Ackerman MJ, Locatis CN. Advanced networks and computing in healthcare. J Am Med Inform Assoc. 2011 Jul-Aug;18(4):523-8. doi: 10.1136/amiajnl-2010-000054. Epub 2011 Apr 12.
  • Cheng W, Pearson G. Algorithm Developed To Make More Reliable Links To Better Photographic Views of Nursing Homes For Prototype "Nursing Home Screener" Web Site. Poster Section III at NIH Research Festival (TECH-3). National Institutes of Health October 2008. Bethesda, MD. October 2008.
  • Winnenburg R, Rodriguez L, Callaghan F, Sorbello A, Szarfman A, Bodenreider O. Aligning Pharmacologic Classes Between MeSH and ATC. 4th International Conference on Biomedical Ontology · ICBO 2013
  • Fontelo P, Liu F. An Analysis of "PubMed for Handhelds" Server Utilization [Poster]. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2012 Nov 3-7; Chicago. p. 1736.
  • Kayaalp M, Browne AC, Dodd ZA, Sagan P, McDonald CJ. An Easy-to-Use Clinical Text De-identification Tool for Clinical Scientists: NLM Scrubber [Poster]. Proceedings of the Annual American Medical Informatics Association Fall Symposium: 1522.
  • Kilicoglu H, Fiszman M, Roberts K, Demner-Fushman D. An Ensemble Method for Spelling Correction in Consumer Health Questions. AMIA Annu Symp Proc. 2015 Nov 5;2015:727-36. eCollection 2015.
  • Lynch P, Luan X, Prettyman M, Mericle L, Borkmann E, Schlaifer J. An evaluation of new and old similarity ranking algorithms. Proceedings of the International Conference on Information Technology: Coding and Computing (ITCC’04). 2004;2:148.
  • Marcelo AB, Fontelo P. An Evaluation of the Usability of Accessing MEDLINE over Short Messaging System. In: Kuhn KA, Warren JR, Leong T-Y, editors. Stud Health Technol Inform [Studies in Health Technology and Informatics] -- MEDINFO 2007: Proceedings of the 12th World Congress on Health (Medical) Informatics -- Building Sustainable Health Systems; 2007 Aug 20-24; Brisbane, Australia:235-6. IOS Press.
  • Locatis C, Berner ES, Hammack G, Smith S, Maisiak R, Ackerman MJ. An exploratory study of co-location as a factor in synchronous, collaborative medical informatics distance education. BMC Res Notes. 2010 Feb 2;3:30. doi: 10.1186/1756-0500-3-30.
  • Stanley RJ, De S, Demner-Fushman D, Antani SK, Thoma GR. An image feature-based approach to automatically find images for application to clinical decision support. Comput Med Imaging Graph. 2011 Jul;35(5):365-72. doi: 10.1016/j.compmedimag.2010.11.008. Epub 2010 Dec 8.
  • Rahman MM, You D, Simpson M. An interactive image retrieval framework for biomedical articles based on visual region-of-interest (ROI) identification and classification [Abstract]. The 2nd IEEE Conference on Healthcare Informatics, Imaging, and Systems Biology Analyzing Big Data for Healthcare and Biomedical Sciences (HISB 2012). La Jolla, CA. September 2012.
  • Resnick MP, Ripple AM, Auston I, Rindflesch TC. An Ontology for Public Health to Support Enhanced Information Retrieval AMIA Annu Symp Proc. 2010
  • Sahoo SS, Bodenreider O, Rutter JL, Skinner KJ, Sheth AP. An Ontology-driven Semantic Mash-up of Gene and Biological pathway information: Application to the domain of nicotine dependence J Biomed Inform. 2008 Oct;41(5):752-65. Epub 2008 Feb 29
  • Aronson AR, Lang FM. An overview of MetaMap: historical perspective and recent advances. J Am Med Inform Assoc. 2010 May-Jun;17(3):229-36. doi: 10.1136/jamia.2009.002733.
  • Banez RJ, Sarmiento R, Marcelo A, Fontelo P, Du B. An SMS Appointment Reminder System for Prenatal Care in Urban Health Care Centers in the Philippines. Telemed J E Health;16(S1):S-38. American Telemedicine Association 15th Annual International Meeting and Exposition; 2010 May 16-18; San Antonio, Texas.
  • Ducut E, Liu F, Fontelo P. An Update on Uniform Resource Locator (URL) Decay in MEDLINE Abstracts and Measures for Its Mitigation. BMC Med Inform Decis Mak. 2008 Jun 11;8:23. DOI: 10.1186/1472-6947-8-23.
  • Van Der Volgen J, Harris BR, Demner-Fushman D. Analysis of Consumer Health Questions for Development of Question-Answering Technology [Poster]. Proceedings of One HEALTH: Information in an Interdependent World, the 2013 Annual Meeting and Exhibition of the Medical Library Association (MLA), 2013.
  • Roberts K, Demner-Fushman D. Annotating Logical Forms for EHR Questions. Proceedings of the Language Resources and Evaluation Conference, LREC,23-28 May 2016, Portorož.
  • Kilicoglu H, Ben Abacha A, Mrabet Y, Roberts K, Rodriguez L, Shooshan SE, Demner-Fushman D. Annotating named entities in consumer health questions. LREC,23-28 May 2016, Portorož.
  • Roberts K, Masterton K, Kilicoglu H, Fiszman M, Demner-Fushman D. Annotating Question Decomposition on Complex Medical Questions. LREC 2014.
  • Roberts K, Masterton K, Fiszman M, Kilicoglu H, Demner-Fushman D. Annotating Question Types for Consumer Health Questions. LREC 2014, BioTxtM workshop.
  • Demner-Fushman D, Simpson M, Antani S, Thoma GR. Annotation and retrieval of clinically relevant images. Int J Med Inform. 2009 Dec;78(12):e59-67. doi: 10.1016/j.ijmedinf.2009.05.003. Epub 2009 Jul 9.
  • Demner-Fushman D, Shooshan SE, Rodriguez L, Antani SK, Thoma GR. Annotation of Chest Radiology Reports for Indexing and Retrieval. Multimodal Retrieval in the Medical Domain 2015 (MRMD 2015), Vienna, Austria, March 29, 2015
  • Demner-Fushman D, Lin J. Answer Extraction, Semantic Clustering, and Extractive Summarization for Clinical Question Answering Proc COLING/ACL 2006. July 2006, Sydney, Australia
  • Demner-Fushman D, Lin J. Answering Clinical Questions with Knowledge-based and Statistical Techniques Computational Linguistics. 2007 Jan;33(1):63-103
  • Aronson AR. API: Semantic Knowledge Representation
  • Kim GR, Aronson AR, Mork JG, Cohen BA, Lehmann CU. Application of a Medical Text Indexer to an Online Dermatology Atlas. MedInfo. 2004 Sept.;2004.
  • Hanauer DA, Saeed M, Zheng K, Mei Q, Shedden K, Aronson AR, Ramakrishnan N. Applying MetaMap to Medline for identifying novel associations in a large clinical dataset: a feasibility analysis. J Am Med Inform Assoc. 2014 Sep-Oct;21(5):925-37. doi: 10.1136/amiajnl-2014-002767. Epub 2014 Jun 13.
  • Lasko TA, Hauser SE. Approximate String Matching Algorithms for Limited-Vocabulary OCR Output Correction Proc. SPIE, Document Recognition and Retrieval VIII. 2001 Jan;4307:232-40.
  • Misra D, Mao S, Rees J, Thoma GR. Archiving a Historic Medico-legal Collection: Automation and Workflow Customization Proc IS&T Archiving 2007. Arlington, Virginia, May 2007; 157-61
  • Fontelo P, Liu F. Are Consensus MEDLINE Abstracts Useful For Guiding Clinical Decisions? Evidence 2010 -- Transforming Healthcare; 2010 Nov 1-2; BMA House, London.
  • Rindflesch TC, Bean CA, Sneiderman CA. Argument Identification for Arterial Branching Predications Asserted in Cardiac Catheterization Reports Proc AMIA Symp. 2000:704-8.
  • Masseroli M, Kilicoglu H, Lang F-M, Rindflesch TC. Argument-predicate Distance as a Filter for Enhancing Precision in Extracting Predications on the Genetic Etiology of Disease. BMC Bioinformatics. 2006 Jun 8;7:291.
  • Ruch P, Tbahriti I, Bobeill J, Aronson AR. Argumentative Feedback: A Linguistically-motivated Term Expansion for Information Retrieval Proc COLING/ACL 2006, 675-82
  • Kilicoglu H, Fiszman M, Rosemblat G, Marimpietri S, Rindflesch TC. Arguments of Nominals in Semantic Interpretation of Biomedical Text BioNLM Workshop Proc, Assoc. for Computational Linguistics 2010
  • Rodgers RPC. ASKLEPiOS Project. Technical Report to the LHNCBC Board of Scientific Counselors; 2004 Sep. 36 pages.
  • Fontelo P, Liu F, Ackerman MJ. askMEDLINE: A Free-Text, Natural Language Query Tool for MEDLINE/PubMed. BMC Med Inform Decis Mak [BMC Medical Informatics and Decision Making]. 2005 Mar 10;5:5.
  • Fontelo P, Liu F, Ackerman MJ, Schardt CM, Keitz SA. askMEDLINE: a Report on a Year-long Experience. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2006 Nov 11-15; Washington DC. p. 923.
  • Demner-Fushman D, Elhadad N. Aspiring to Unintended Consequences of Natural Language Processing: A Review of Recent Developments in Clinical and Consumer-Generated Text Processing. IMIA Yearbook of Medical Informatics 2016.
  • Keselman A, Tse T, Crowell J, Browne AC, Ngo L, Zeng Q. Assessing Consumer Health Vocabulary Familiarity: An Exploratory Study J Med Internet Res. 2007 Mar 14;9(1):e5
  • Gardner C, Liu F, Fontelo P, Flanagan MC, Hoang A, Burke HB. Assessing the usability by clinicians of VISION: A hierarchical display of patient-collected physiological information to clinicians. BMC Med Inform Decis Mak. 2017 Apr 14;17(1):41. doi: 10.1186/s12911-017-0435-3.
  • Siegel ER, Wood FB, Dutcher GA, Ruffin A, Logan RA, Scott J. Assessment of the National Library of Medicine's Health Disparities Plan: A Focus on Native American Outreach J Med Libr Assoc. 2005 Oct;93(4 Suppl):S10-20
  • Kilicoglu H, Rosemblat G, Rindflesch TC. Assigning factuality values to semantic relations extracted from biomedical research literature. PLoS One. 2017 Jul 5;12(7):e0179926. doi: 10.1371/journal.pone.0179926. eCollection 2017.
  • Lindberg, DAB, Ash JS (Interviewer and Editor), Sittig DF (Interviewer and Editor), Goodwin RM (Editor). At the helm of the world's largest biomedical library: 2005 Interviews with Donald A.B. Lindberg, MD Conversations with Medical Informatics Pioneers: An oral history project.
  • Kim I, Thoma GR. Automated Classification of Author’s Sentiments in Citation Using Machine Learning Techniques: A Preliminary Study. Proc. the 2015 IEEE Conf. Computational Intelligence in Bioinformatics and Computational Biology (CIBCB 2015), Niagara Falls, Canada, Aug. 12-15, 2015.
  • Zhang, K, Demner-Fushman D. Automated classification of eligibility criteria in clinical trials to facilitate patient-trial matching for specific patient populations. J Am Med Inform Assoc. 2017 Jul 1;24(4):781-787. doi: 10.1093/jamia/ocw176.
  • Kim I, Le DX, Thoma GR. Automated Cleanup Processing for Extracting Bibliographic Data from Biomedical Online Journals In: Callaos N, Lesso W, editors. SCI 2005. Proc. 9th World Multiconference on Systemics, Cybernetics and Informatics; 2005 Jul 10-13; Vol. 4; Orlando (FL): International Institute of Informatics and Systemics; c2005. 401-5
  • Thoma GR, Ford G. Automated Data Entry System: Performance Issues Proc. SPIE: Document Recognition and Retrieval IX. 2002 Jan;4670: 181-90.
  • Le DX, Thoma GR. Automated Document Labeling for Web-Based Online Medical Journals Proc. 7th World Multiconference on Systemics, Cybernetics and Informatics. 2003 July;II: 411-15.
  • Kim I, Le DX, Thoma GR. Automated identification of biomedical article type using support vector machines. Proc. 18th SPIE Document Recognition and Retrieval, 7874:787403 (1-9), San Francisco, January 2011.
  • Kim I, Thoma GR. Automated Identification of Potential Conflict-of-Interest in Biomedical Articles Using Hybrid Deep Neural Network. Proc. 14th Int’l Conf. Machine Learning and Data Mining (MLDM 2018), LNAI 10934, pp. 99-112, Newark, NJ, July 2018.
  • Kim I, Thoma GR. Automated Identification of Potential Conflict-of-Interest in Biomedical Articles Using Hybrid Deep Neural Network. Proc. 14th Int’l Conf. Machine Learning and Data Mining (MLDM 2018), LNAI 10934, pp. 99-112, Newark, NJ, July 2018.
  • Kim J, Le DX, Thoma GR. Automated Labeling Algorithms for Biomedical Document Images Proc. 7th World Multiconference on Systemics, Cybernetics and Informatics. 2003 July;V: 352-57.
  • Kim J, Le DX, Thoma GR. Automated Labeling in Document Images Proc. SPIE, Document Recognition and Retrieval VIII. 2001 Jan;4307:111-22.
  • Kim J, Le DX, Thoma GR. Automated Labeling of Bibliographic Data Extracted from Biomedical Online Journals Proc. SPIE Electronic Imaging. 2003 Jan;5010: 47-56.
  • Kim J, Le DX, Thoma GR. Automated Labeling Of Biomedical Online Journal Articles In: Callaos N, Lesso W, editors. SCI 2005. Proc 9th World Multiconference on Systemics, Cybernetics and Informatics; 2005 Jul 10-13; Vol. 4; Orlando (FL): International Institute of Informatics and Systemics; c2005. 406-11
  • Le DX, Tran LQ, Chow J, Kim J, Hauser SE, Moon CW, Thoma GR. Automated Medical Citation Records Creation for Web-Based Online Journals Proc. 14th IEEE Symposium on Computer-Based Medical Systems: IEEE Computer Society. 2001.
  • Thoma GR, Mao S, Misra D. Automated Metadata Extraction to Preserve the Digital Contents of Biomedical Collections Proc VIIP 2005. September 2005. Benidorm, Spain; 214-19
  • Kim I, Le DX, Thoma GR. Automated method for extracting "citation sentences" from online biomedical articles using SVM-based text summarization technique. Proc. the 2014 IEEE Int'l Conf. on Systems, Man, and Cybernetics (SMC 2014), pp. 2006-2011, San Diego, October, 2014
  • Hauser SE, Le DX, Thoma GR. Automated Zone Correction in Bitmapped Document Images SPIE: Document Recognition and Retrieval VII. 2000 Jan;3976: 248-58.
  • Jimeno-Yepes A, Mork J, Demner-Fushman D, Aronson AR. Automatic algorithm selection for MeSH Heading indexing based on meta-learning. International Symposium on Languages in Biology and Medicine, Singapore, December, 2011.
  • Bangalore AK, Divita G, Humphrey SM, Browne AC, Thorn KE. Automatic Categorization of Google Search Results for Medical Queries using JDI Medinfo 2007: Proc. of the 11th World Congress on Health (Medical) Informatics
  • Rodriguez L, Huser V, Bodenreider O, Cimino J. Automatic coding of Free-Text Medication Data recorded by Research Coordinators [Poster]. AMIA Annu Symp Proc 2014:1565.
  • Kim J, Le DX, Thoma GR. Automatic Extraction of Bibliographic Information from Biomedical Online Journal Articles Using a String Matching Algorithm Proc IEEE CBMS, June 2006, Salt Lake City, Utah; 905-10
  • Zhang M, Del Fiol G, Grout RW, Jonnalagadda S, Medlin R, Mishra R, Weir C, Liu H, Mostafa J, Fiszman M. Automatic identification of comparative effectiveness research from medline citations to support clinicians' treatment information needs. Stud Health Technol Inform. 2013;192:846-50.
  • You D, Antani SK, Demner-Fushman D, Rahman MM, Govindaraju V, Thoma GR. Automatic identification of ROI in figure images toward improving hybrid (text and image) biomedical document retrieval. Proceedings of SPIE Electronic Imaging Science and Technology, Document Retrieval and Recognition XVIII. San Francisco, CA. January 2011;7874:78740K.
  • Humphrey SM, Rindflesch TC, Aronson AR. Automatic Indexing by Discipline and High-Level Categories: Methodology and Potential Applications Advances in classification research. Proc. of the 11th ASIST SIG/CR Classification Research Workshop. 2001.
  • Névéol A, Mork JG, Aronson AR. Automatic indexing of specialized documents: using generic vs. domain-specific document representations. Proc 2007 Workshop BioNL'07, 183-92.
  • Neveol A, Shooshan SE, Claveau V. Automatic Inference of Indexing Rules for MEDLINE BMC Bioinformatics. 2008 Nov 19;9 Suppl 11:S11
  • Humphrey S, Rindflesch TC, Aronson AR. Automatic Journal Descriptor Indexing Extended to Indexing by UMLS Semantic Type Using the Cosine Document Similarity Measure. Proc. of the 11th SIG/CR Classification Research Workshop. 2000;103-16.
  • Kim W, Aronson AR, Wilbur WJ. Automatic MeSH Term Assignment and Quality Assessment Proc AMIA Symp. 2001:319-23.
  • Kilicoglu H, Rosemblat G, Malicki M, Ter Riet G. Automatic recognition of self-acknowledged limitations in clinical research literature. J Am Med Inform Assoc. 2018 Jul 1;25(7):855-861. doi: 10.1093/jamia/ocy038.
  • Apostolova E, Channin DS, Demner-Fushman D, Furst J, Lytinen S, Raicu D. Automatic segmentation of clinical texts. 2009 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Minneapolis, MN, 2009, pp. 5905-5908. doi: 10.1109/IEMBS.2009.5334831
  • Cheng B, Antani SK, Stanley J, Demner-Fushman D, Thoma GR. Automatic segmentation of subfigure image panels for multimodal biomedical document retrieval. Proceeding of: Document Recognition and Retrieval XVIII - DRR 2011, 18th Document Recognition and Retrieval Conference, part of the IS&T-SPIE Electronic Imaging Symposium, San Jose, CA, USA, January 24-29, 2011, Proceedings.
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  • Leroy G, Rindflesch TC. Effects of Information and Machine Learning Algorithms on Word Sense Disambiguation with Small Datasets Int J Med Inform. 2005 Aug;74(7-8):573-85
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  • Chen S, Misra D, Thoma GR. Efficient Automatic OCR Word Validation Using Word Partial Format Derivation and Language Model Document Recognition and Retrieval XVII. Proceedings of the SPIE. San Jose, CA. January 2010;7534:75340O-75340O-8
  • Gavino A, Marcelo A, Isip-Tan IT, Apostol-Nicodemus L, Mesa-Gaerlan FJ, Firaza PN, Faustorilla JF Jr., Fontelo P. Email2MEDLINE Use by Rural Health Physicians in Remote Areas of the Philippines [Poster]. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2012 Nov 3-7; Chicago. p. 1746.
  • Mao S, Kanungo T. Empirical Performance Evaluation Methodology and its Application to Page Segmentation Algorithms IEEE Transactions on Pattern Analysis and Machine Intelligence. 2001 Mar;23(3): 242-256.
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  • Collen MF, Sittig DF (Interviewer and Editor), Ash JS (Editor), Goodwin RM (Editor). Engineering Computerized Multiphasic Health Screening: 2005 Interview of Morris F. Collen, MD. Conversations with Medical Informatics Pioneers: An oral history project.
  • Lu C, Tormey D, McCreedy L, Browne AC. Enhanced LexSynonym Acquisition for Effective UMLS Concept Mapping. Stud Health Technol Inform. 2017;245:501-505.
  • Beaudoin DE, Rocha RA, Tse T. Enhancing Access to Patient Education Information: A Pilot Usability Study AMIA Annu Symp Proc. 2005:892
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  • Ide NC, Loane RF, Demner-Fushman D. Essie: A Concept-based Search Engine for Structured BiomedicalText J Am Med Inform Assoc. 2007 May-Jun;14(3):253-63. Epub 2007 Feb 28
  • Simpson M, Demner-Fushman D, Thoma GR. Evaluating the Importance of Image-related Text for Ad-hoc and Case-based Biomedical Article Retrieval. AMIA Annu Symp Proc. 2010 Nov 13;2010:752-6.
  • Anne A, Bagayoko C, Fontelo P. Evaluation de BabelMeSH en Francais. IRBM 2009. DOI: 10.1016/j.irbm.2009.06.006.
  • Fontelo P, Liu F, Yagi Y. Evaluation of a smartphone for telepathology: Lessons learned. J Pathol Inform. 2015 Jun 23;6:35. doi: 10.4103/2153-3539.158912. eCollection 2015.
  • Névéol A, Mork JG, Aronson AR, Darmoni SJ. Evaluation of French and English MeSH indexing systems with a parallel corpus. AMIA Annu Symp Proc. 2005:565-9.
  • Goldbach H, Chang AY, Kyer A, Ketshogileng D, Taylor L, Chandra A, Dacso M, Kung SJ, Rijken T, Fontelo P, Littman-Quinn R, Seymour AK, Kovarik CL. Evaluation of generic medical information accessed via mobile phones at the point of care in resource-limited settings. J Am Med Inform Assoc. 2014 Jan-Feb;21(1):37-42. doi: 10.1136/amiajnl-2012-001276. Epub 2013 Mar 27.
  • Savery M, Huston M, Mork JG, Printseva O, Rae A, Schmidt S, Demner-Fushman D. Evaluation of System for Selective Indexing Classification. AMIA Fall Symposium, 2019.
  • Armstrong K, Liu F, Seymour A, Mazhani L, Littman-Quinn R, Fontelo P, Kovarik C. Evaluation of txt2MEDLINE and development of short messaging service-optimized, clinical practice guidelines in Botswana. Telemed J E Health. 2012 Jan-Feb;18(1):14-7. doi: 10.1089/tmj.2011.0014. Epub 2011 Dec 7.
  • Ash J, Sittig D. Everything Electronic Medical Records: Systems, Standards and Studies Conversations with Medical Informatics Pioneers: An oral history project.
  • Leon SA, Fontelo P, Green L, Ackerman MJ, Liu F. Evidence-based Medicine Among Internal Medicine Residents in a Community Hospital Program Using Smart Phones. BMC Medical Informatics and Decision Making. 2007 Feb 21;7:5. DOI: 10.1186/1472-6947-7-5.
  • Fontelo P, Ackerman MJ. Evidence-Based Medicine Needs Easy-To-Use Handheld Tools for Universal Utilization. MedGenMed. 2004 Sep 21;6(3):53.
  • Cohen T, Widdows D, Rindflesch TC. Expansion-by-analogy: A vector symbolic approach to semantic search. AAAI-Fall 2014 Symposium on Quantum Informatics for Cognitive, Social, and Semantic Processes.
  • Zhang R, Cairelli MJ, Fiszman M, Kilicoglu H, Rindflesch TC, Pakhomov SV, Melton GB. Exploiting Literature-derived Knowledge and Semantics to Identify Potential Prostate Cancer Drugs. Cancer Inform. 2014 Oct 14;13(Suppl 1):103-11. doi: 10.4137/CIN.S13889. eCollection 2014.
  • Jimeno-Yepes A, McInnes BT, Aronson AR. Exploiting MeSH indexing in MEDLINE to generate a data set for word sense disambiguation. BMC Bioinformatics. 2011 Jun 2;12:223. doi: 10.1186/1471-2105-12-223.
  • Hristovski D, Friedman C, Rindflesch TC. Exploiting Semantic Relations for Literature-Based Discovery AMIA Annu Symp Proc. 2006:349-53
  • Srinivasan P, Rindflesch T. Exploring Text Mining from MEDLINE Proc AMIA Symp. 2002:722-6.
  • Graham L, Tse T, Keselman A. Exploring User Navigation during Online Health Information Seeking AMIA Annu Symp Proc. 2006:299-303
  • Locatis C, Gaines C, Liu W, Gill MJ. Extending a Blended Education Programme to Native American High School Students in Alaska. J Vis Commun Med. 2009 Jan;32(1):8-13.
  • Fontelo P, Liu F, Zhang K, Ackerman MJ. Extending the benefits of one laptop per child to health. BMJ. 2008 Dec 1;337:a2459. doi: 10.1136/bmj.a2459.
  • McCray AT, Gallagher ME, Flannick MA. Extending the role of metadata in a digital library system. In: Proceedings of the IEEE Forum on Research and Technology Advances in Digital Libraries, pp. 190-9, 1999.
  • Zou J, Le DX, Thoma GR. Extracting a Sparsely-Located Named Entity from Online HTML Medical Articles Using Support Vector Machine Proc SPIE-IS/T Electronic Imaging. San Jose, CA. January 2008;6815:6815OP(1-10)
  • Kang YS, Kayaalp M. Extracting laboratory test information from biomedical text. J Pathol Inform. 2013 Aug 31;4:23. doi: 10.4103/2153-3539.117450. eCollection 2013.
  • Rindflesch TC, Rajan J, Hunter L. Extracting Molecular Binding Relationships from Biomedical Text Proc. of the 6th Applied Natural Language Processing Conference. 2000;: 188-95.
  • Mork JG, Bodenreider O, Demner-Fushman D, Dogan RI, Lang FM, Lu Z, Névéol A, Peters L, Shooshan SE, Aronson AR. Extracting Rx information from clinical narrative. J Am Med Inform Assoc. 2010 Sep-Oct;17(5):536-9. doi: 10.1136/jamia.2010.003970.
  • Ahlers C, Fiszman M, Demner-Fushman D, Lang F, Rindflesch TC. Extracting Semantic Predications from MEDLINE Citations for Pharmacogenomics Pacific Symposium on Biocomputing 2007 12:209-220
  • Weeber M, Vos R. Extracting the Lowest-Frequency Words: Pitfalls and Possibilities Computational Linguistics. 2000;26(3):301-17.
  • Chachra S, Xue Z, Antani SK, Demner-Fushman D, Thoma GR. Extraction and Labeling High-resolution Images from PDF Documents. Proc. SPIE 9021, Document Recognition and Retrieval XXI, 90210Q (December 27, 2013). doi:10.1117/12.2042336.
  • Rosemblat G, Graham L, Tse T. Extractive Summarization in Clinical Trials Protocol Summaries: A Case Study Proc IICAI-2007, pp. 1824-1837
  • Borovikov E, Vajda S, Gill MJ. Face Match for Family Reunification: Real-World Face Image Retrieval International Journal of Computer Vision and Image Processing. DOI: 10.4018/IJCVIP.2017040102.
  • Borovikov E, Vajda S, Lingappa G, Antani SK, Thoma GR. Face matching for post-disaster family reunification. IEEE International Conference on Healthcare Informatics. Philadelphia, PA, USA. September 2013.
  • Borovikov E, Lingappa G. Face matching in Lost Person Finder Project. CEB Technical Report. January 2012.
  • Borovikov E. FaceMatch: visual search for pictures of missing persons during a disaster event. NIH Research Festival. October 2012.
  • Borovikov E, Vajda S, Lingappa G, Candemir S, Antani SK, Gill MJ, Thoma GR. FaceMatch: visual search of missing persons during a disaster event [Poster]. NIH Intramural Research Festival, Bethesda MD, November 6-8, 2013.
  • Zarin D. Factual Errors about ClinicalTrials.gov and other federal mandates in special report by Shuster [Letter]. Clin Transl Sci. 2012 Apr;5(2):217; author reply 217. doi: 10.1111/j.1752-8062.2012.00410.x.
  • Johnson HL, Fontelo P, Olsen CH, Jones KD, Gimbel RW. Family nurse practitioner student perception of journal abstract usefulness in clinical decision making: a randomized controlled trial. J Am Assoc Nurse Pract. 2013 Nov;25(11):597-603. doi: 10.1111/1745-7599.12013. Epub 2013 Mar 6.
  • Locatis C, Fontelo P, Ackerman MJ, Sneiderman C. Feasibility Studies in IP Videoconferencing, Streaming, and Wireless Communication. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2002 Nov 9-13; San Antonio, Texas. p. 1090.
  • Jimeno Yepes AJ, Plaza L, Carrillo-de-Albornoz J, Mork JG, Aronson A. Feature engineering for MEDLINE citation categorization with MeSH. BMC Bioinformatics. 2015 Apr 8;16:113. doi: 10.1186/s12859-015-0539-7.
  • Wei W, Marmor R, Singh S, Wang S, Demner-Fushman D, Kuo TT, Hsu CN, Ohno-Machado L. Finding Related Publications: Extending the Set of Terms Used to Assess Article Similarity. AMIA Jt Summits Transl Sci Proc. 2016 Jul 20;2016:225-34. eCollection 2016.
  • Fontelo P, Liu F. Finding translational science publications in MEDLINE/PubMed with translational science filters. Clin Transl Sci. 2011 Dec;4(6):455-9. doi: 10.1111/j.1752-8062.2011.00320.x. Epub 2011 Nov 7.
  • Srinivasan S, Rindflesch TC, Hole WT, Aronson AR, Mork JG. Finding UMLS Metathesaurus Concepts in MEDLINE. Proc AMIA Symp. 2002:727-31.
  • Névéol A, Shooshan SE, Mork JG, Aronson AR. Fine-grained indexing of the biomedical literature: MeSH subheading attachment for a MEDLINE indexing tool. AMIA Annu Symp Proc. 2007 Oct 11:553-7.
  • James E. McDonald, MD, Ron Fishman, MD (Editor), McDonald CJ (Editor). FOCUS Eye Care in Haiti and Nigeria from 1961-1996 E-book (1st edition 2010, 2nd edition 2014).
  • Detmer DE, Ash JS (Interviewer and Editor), Sittig DF (Interviewer and Editor), Goodwin RM (Editor). Fostering Health Policy and the Biomedical Informatics Profession: 2006 Interview of Don Detmer. Conversations with Medical Informatics Pioneers: An oral history project.
  • Fontelo P, Liu F, Cravedi K. Found in Translation: Tracking and Tagging Translational Research. AMIA Annu Symp Proc. 2009 Nov 14-18; San Francisco. p. 823.
  • Warner HR, Sittig DF (Interviewer and Editor), Ash JS (Editor), Goodwin RM (Editor). Founder of the HELP System and the Utah Medical Informatics Program: 2005 Interview of Homer R. Warner, Sr. Conversations with Medical Informatics Pioneers: An oral history project.
  • Workman TE, Fiszman M, Rindflesch TC, Nahl D. Framing Serendipitous Information Seeking Behavior for Facilitating Literature-Based Discovery: A Proposed Model. Journal of the American Society for Information Science and Technology 2013, in press.
  • Zarin D, Tse T, Williams R. Frequency and nature of changes in primary outcome measures. Presented at: Sixth International Congress on Peer Review and Biomedical Publication; September 2009; Vancouver, BC, Canada.
  • Sahoo SS, Zeng K, Bodenreider O, Sheth A. From 'Glycosyltransferase' to 'Congenital Muscular Dystrophy': Integrating Knowledge from NCBI Entrez Gene and the Gene Ontology Stud Health Technol Inform. 2007;129(Pt 2):1260-4
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  • Aronson AR, Bodenreider O, Demner-Fushman D, Fung KW, Lee VK, Mork JG, Névéol A, Peters L, Rogers WJ. From indexing the biomedical literature to coding clinical text: experience with MTI and machine learning approaches. Proc 2007 Workshop BioNL'07, June 2007, pp. 105-112, Prague, Czech Republic.
  • Aronson AR, Demner-Fushman D, Humphrey SM, Lin J, Liu H, Ruch P, Ruiz ME, Smith LH, Tanabe LK, Wilbur WJ. Fusion of Knowledge-intensive and Statistical Approaches for Retrieving and Annotating Textual Genomics Documents Proc TREC 2005, 36-45
  • Mitchell JA, Aronson AR, Mork JG, Folk LC, Humphrey SM, Ward JM. Gene Indexing: Characterization and Analysis of NLM's GeneRIFs. AMIA Annu Symp Proc. 2003:460-4.
  • Villegas M, Müller R, De Herrera A, Schaer R, Bromuri S, Gilbert A, Piras L, Wang J, Yan F, Ramisa A, Dellandrea E, Gaizauskas R, Mikolajczyk K, Puigcerver J, Toselli A, Sánchez J, Vidal E. General Overview of ImageCLEF at the CLEF 2016 Labs. CLEF Proceedings, Springer, 2016
  • Lu C, Tormey D, McCreedy L, Browne AC. Generating A Distilled N-Gram Set: Effective Lexical Multiword Building in the SPECIALIST Lexicon. The 10th International Joint Conference on Biomedical Engineering Systems and Technologies (BIOSTEC 2017), Vol(5): HEALTHINF, PORTO, Portugal, February 21-23, 2017, p. 77-87.
  • Weeber M, Vos R, Klein H, De Jong-Van Den Berg LT, Aronson AR, Molema G. Generating Hypotheses by Discovering Implicit Associations in the Literature: A Case Report of a Search for New Potential Therapeutic Uses for Thalidomide J Am Med Inform Assoc. 2003 May-Jun;10(3):252-9. Epub 2003 Jan 28.
  • Mao S, Kim J, Le DX, Thoma GR. Generating Robust Features for Style-Independent Labeling of Bibliographic Fields in Medical Journal Articles Proc. 7th World Multiconference on Systemics, Cybernetics and Informatics.2003 July;III:53-6.
  • Lu C, Tormey D, McDreedy L, Browne AC. Generating SD-Rules in the SPECISLIST Lexical Tools - Optimization for suffix derivation rule set [Poster]. BIOSTEC 2016), Vol(5): HEALTHINF, Rome, Italy, February 21-23, 2016, p. 353-358 (9th International Conference on Health Informatics, HEALTHINF/BIOSTEC, 2016 Best Poster Award
  • Lu C, Tormey D, MCreedy L, Browne AC. Generating the MEDLINE N-Gram Set [Poster]. AMIA 2015 Annual Symposium, San Francisco, CA, November 14-18, 2015, p. 1569.
  • Lin J, Karakos D, Demner-Fushman D, Khudanpur S. Generative Content Models for Structural Analysis of Medical Abstracts Proc 2006 BioNLP'06. June 2006, New York City, New York
  • Jimeno-Yepes AJ, Sticco JC, Mork JG, Aronson AR. GeneRIF indexing: sentence selection based on machine learning. BMC Bioinformatics. 2013 May 31;14:171. doi: 10.1186/1471-2105-14-171.
  • Morrison SM, Cheh M, Calvo SC, Collins H, Fun J, Greenberg K, Forman-Neall L. Genetics Home Reference, Ten Years In: Where We Are Now [Poster]. American Society of Human Genetics, November 9, 2012, San Francisco, CA.
  • Greenberg K, Calvo SC, Collins H, Foreman NL, Morrison SM. Genetics Home Reference: A point of care resource in the genomic medicine era [Poster]. American Society of Human Genetics Annual Meeting, Vancouver, British Columbia, Canada, November 18-22, 2016.
  • Fomous C, Mitchell JA, McCray A. Genetics Home Reference: Helping Patients Understand the Role of Genetics in Health and Disease Community Genet. 2006;9(4):274-8
  • Wilkowski B, Fiszman M, Miller CM, Hristovski D, Arabandi S, Rosemblat G, Rindflesch TC. Graph-based methods for discovery browsing with semantic predications. AMIA Annu Symp Proc. 2011;2011:1514-23. Epub 2011 Oct 22.
  • Le DX, Straughan SR, Thoma GR. Greek Alphabet Recognition Technique for Biomedical Documents Proc. 6th World Multiconference on Systemics, Cybernetics and Informatics, eds: Callaos N, et al. 2002 July;III: 86-91.
  • Ford G, Thoma GR. Ground Truth Data for Document Image Analysis Proceedings of 2003 Symposium on Document Image Understanding and Technology. 2003 April 9-11;: 199-205.
  • Cairelli M, Rindflesch TC. Hierarchical Summarization of Concepts for Visual Discovery Browsing - a Pilot Study [abstract and demo]. Procedings of the IEEE VisWeek Workshop on Visual Analytics in Healthcare, October 23, 2011, Providence, RI, 37-40.
  • Marchell R, Locatis CN, Ackerman MA. High definition live interactive and store and forward teledermatology: A comparison of concordance, confidence, and satisfaction with in-person exams. In Smari, W. & Natarian, J. (Eds.), Proceedings of the 2016 International Conference on Collaboration Technologies and Systems, Orlando, Florida, October 31. Institute for Electrical and Electronic Engineers & Association for Computing Machinery, 520-523.
  • Marchell R, Locatis CN, Ackerman MJ. High definition live interactive and store and forward teledermatology: initial qualitative observations. In W. Smari, W. McQuay, and M. Nygard (Eds.), Proc. IEEE 2015 International Conference on Collaboration Technologies and Systems, Atlanta, Georgia, June 1-5, 446-449.
  • Locatis CN. High Performance Connectivity and Communications. Technical Report to the LHNCBC Board of Scientific Counselors; 2011 Sep. 29 pages.
  • Sabir TF, Hauser SE, Thoma GR. Historical Author Affiliations Assist Verification of Automatically Generated MEDLINE Citations AMIA Annu Symp Proc. 2006:1082
  • Logan RA, Park J, Shin JH. How Two Korean Newspapers Covered a Public Health Crisis Science Communication. 25:4:365-389 (June 2004)
  • Kim IC, Le DX, Thoma GR. Hybrid approach combining contextual and statistical information for identifying and statistical information for identifying MEDLINE citation terms. Proc. SPIE-IS/T Electronic Imaging. San Jose, CA. January 2008;6815:68150P(1-9)
  • West RT. IAIMS: an interview with Dick West. Integrated Advanced Information Management Systems. Interview by Joan S Ash and Frances E Johnson. J Am Med Inform Assoc. 1999 Nov-Dec;6(6):447-56.
  • Kayaalp M. ICU Outcome Predictions using Physiologic Trends in the First Two Days. Computing in Cardiology (39)977–980.
  • Kim IC, Le DX, Thoma GR. Identification of "comment-on sentences" in online biomedical documents using support vector machines. Proc. SPIE conference on Document Recognition and Retrieval, 6500:65000O (1-8), San Jose, January 2007.
  • Kim J, Le DX, Thoma GR. Identification of Investigator Name Zones Using SVM Classifiers and Heuristic Rules. 12th international Conference on Document Analysis and Recognition (ICDAR). Washington D.C., August 2013.
  • Bernhardt PJ, Rindflesch TC, Kilicoglu H, Tringali M. Identifying Anatomical Concepts in Biomedical Text for Automatic Selection of Images Medinfo. 2004 Sept.;2004: 1521.
  • Zhang S, Bodenreider O. Identifying Mismatches in Alignments of Large Anatomical Ontologies AMIA Annu Symp Proc. 2007 Oct 11:851-5
  • Shang N, Xu H, Rindflesch TC, Cohen T. Identifying plausible adverse drug reactions using knowledge extracted from the literature. J Biomed Inform. 2014 Dec;52:293-310. doi: 10.1016/j.jbi.2014.07.011. Epub 2014 Jul 19.
  • Cairelli M, Rindflesch TC. Identifying Potential Biomarkers for Mild Traumatic Brain Injury by Mining Semantic Relations from MEDLINE Citations [Poster[. 2011 Trauma Spectrum Conference, Bethesda, MD, December 9, 2011.
  • Jimeno Yepes AJ, Mork JG, Aronson A. Identifying Publication Types Using Machine Learning. BioASQ Workshop 2013.
  • Chapman WW, Fiszman M, Dowling JN, Chapman BE, Rindflesch TC. Identifying Respiratory Findings in Emergency Department Reports for Biosurveillance using MetaMap Medinfo. 2004 Sept.;2004: 487-491.
  • Fiszman M, Rosemblat G, AhlersCB, Rindflesch TC. Identifying Risk Factors for Metabolic Syndrome in Biomedical Text AMIA Annu Symp Proc. 2007 Oct 11:249-53
  • Kim I, Le DX, Thoma GR. Identifying “comment-on” citation data in online biomedical articles using SVM-based text summarization technique. Proc. Int’l Conf. Artificial Intelligence (ICAI’12), vol. 1, pp. 431-437, Las Vegas, July 2012.
  • Apostolova E, You D, Xue Z, Antani SK, Demner-Fushman D, Thoma GR. Image Retrieval From Scientific Publications: Text and Image Content Processing To Separate Multipanel Figures. JASIST (Journal of the American Society for Information Science and Technology), 64(5):893–908, 2013.
  • Lu C, Tormey D, McDreedy L, Browne AC. Implementing comprehensive derivational features in Llexical tools using a systematical approach [Poster]. AMIA 2013 Annual Symposium, Washington, DC, November 16-20, 2013, p. 904
  • Jimeno-Yepes A, Aronson AR. Improving an automatically extracted corpus for UMLS Metathesaurus word sense disambiguation. BioSEPLN 2010, Sept. 2010.
  • Hristovski D, Peterlin B, Mitchell JA, Humphrey SM. Improving literature based discovery support by genetic knowledge integration. Stud Health Technol Inform. 2003;95:68-73.
  • Gallagher ME. Improving Software Sustainability: Lessons Learned from Profiles in Science. Archiving. 2013;2013:74-79.
  • Lu C, Demner-Fushman D. Improving Spelling Correction with Consumer Health Terminology Improving Spelling Correction with Consumer Health Terminology AMIA 2018 Annual Symposium, San Francisco, CA, November 3-7, 2018, p. 2053.
  • Locatis CN, Williamson D, Gould-Kabler C, Zone-Smith L, Detzler I, Roberson J, Maisiak R, Ackerman MJ. In-Person, Video, and Telephonic Medical Interpretation. American Telemedicine Association 16th Annual International Meeting; 2011 May 1-3; Tampa, Florida.
  • Caudle KE, Klein TE, Hoffman JM, Muller DJ, Whirl-Carrillo M, Gong L, McDonagh EM, Sangkuhl K, Thorn CF, Schwab M, Agundez JA, Freimuth RR, Huser V, Lee MT, Iwuchukwu OF, Crews KR, Scott SA,, Wadelius M, Swen JJ, Tyndale RF, Stein CM, Roden D, Relling MV, Williams MS, Johnson SG. Incorporation of pharmacogenomics into routine clinical practice: the Clinical Pharmacogenetics Implementation Consortium (CPIC) guideline development process. Curr Drug Metab. 2014 Feb;15(2):209-17.
  • Hess CN, Roe MT, Gibson CM, Temple RJ, Pencina MJ, Zarin DA, Anstrom KJ, Alexander JH, Sherman RE, Fiedorek FT, Mahaffey KW, Lee KL, Chow SC, Armstrong PW, Califf RM. Independent data monitoring committees: preparing a path for the future. Am Heart J. 2014 Aug;168(2):135-41.e1. doi: 10.1016/j.ahj.2014.05.003. Epub 2014 May 15.
  • Kim J, Le DX, Thoma GR. Inferring Grant Support Types From Online Biomedical Articles 22nd IEEE ISCBMS. Albuquerque, NM. August 2009
  • Kilicoglu H. Inferring Implicit Causal Relationships in Biomedical Literature. Proc 15th Workshop on Biomedical Natural Language Processing. Pages 46-55. 2016.
  • Rindflesch TC, Blake CL, Fiszman M, Kilicoglu H, Rosemblat G, Schneider J, Zeiss CJ. Informatics Support for Basic Research in Biomedicine. ILAR J. 2017 Jul 1;58(1):80-89. doi: 10.1093/ilar/ilx004.
  • Olson R, James E, Fontelo P. Information access trends among clinicians at a community hospital in northeast Georgia. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2010 Nov 13-17; Washington DC. p. 975.
  • Collins H, Calvo SC, Greenberg K, Forman, NL, Morrison SM. Information Needs in the Precision Medicine Era: How Genetics Home Reference Can Help. Interact J Med Res 2016;5(2):e13 DOI: 10.2196/ijmr.5199
  • Roberts K, Gururaj A, Chen X, Pournejati S, Cohen T, Hersh WR, Demner-Fushman D. Information Retrieval for Biomedical Datasets. 2016 bioCADDIE Challenge. AMIA 2017.
  • Gavino AI, Ho BLC, Wee PAA, Marcelo AB, Fontelo P. Information-seeking practices of medical professionals and students in low and middle income countries. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2011 Oct 22-26; Washington DC. p. 1780.
  • Locatis CN. Instructional design and technology in healthcare. Chapter 17 in: Reiser RA, Dempsey JV, editors. Trends and Issues in Instructional Design and Technology. Upper Saddle River, New Jersey: Merrill Prentice Hall; 2002 Jan 1.
  • Fiszman M, Rindflesch TC, Kilicoglu H. Integrating a Hypernymic Proposition Interpreter into a Semantic Processor for Biomedical Texts AMIA Annu Symp Proc. 2003:239-43.
  • Maver A, Hristovski D, Rindflesch TC, Peterlin B. Integration of data from omic studies with the literature-based discovery towards identification of novel treatments for neovascularization in diabetic retinopathy. Biomed Res Int. 2013;2013:848952. doi: 10.1155/2013/848952. Epub 2013 Nov 24.
  • Rahman MM, You D, Simpson MS, Antani SK, Demner-Fushman D. Interactive Cross and Multimodal Biomedical Image Retrieval Based on Automatic Region-Of-Interest (ROI) Identification and Classification. International Journal of Multimedia Information Retrieval (MMIR) 2014 Sep;3(3):131-146.
  • Thoma GR, Ford G, Antani SK, Demner-Fushman D, Chung M, Simpson M. Interactive Publication: The document as a research tool. Web Semant. 2010 Jul 1;8(2-3):145-150.
  • Thoma GR, Antani S, Ford GL, Chung M, Vasudevan K. Interactive Publications Research: A Report to the Board of Scientific Counselors September 2005 Technical Report to the LHNCBC Board of Scientific Counselors.
  • Thoma GR, Ford G, Chung M, Vasudevan K, Antani S. Interactive Publications: Creation and Usage Proc IS and T/SPIE Electronic Imaging 2006: Digital Publishing. San Jose, CA. Jan 15-19, 2006.
  • Ackerman MJ, Siegel, E, Wood, F. Interactive Science Publishing: A joint OSA-NLM project. Information Services & Use. 2010 Jan-Feb;30:39-50. DOI: 10.3233/ISU-2010-0612.
  • Roberts K, Demner-Fushman D. Interactive use of online health resources: a comparison of consumer and professional questions. J Am Med Inform Assoc. 2016 Jul;23(4):802-11. doi: 10.1093/jamia/ocw024. Epub 2016 May 4.
  • Liu WL, Zhang K, Locatis CN, Ackerman MJ. Internet-based videoconferencing coder/decoders and tools for telemedicine. Telemed J E Health. 2011 Jun;17(5):358-62. doi: 10.1089/tmj.2010.0193. Epub 2011 May 12.
  • He Y, Kayaalp M. Interpretation of Data and Identification of Information are Sine Qua Non for Modern Digital Information Services AMIA Annu Symp Proc. 2006:946
  • Fiszman M, Demner-Fushman D, Lang FM, Goetz P, Rindflesch TC. Interpreting Comparative Constructons in Biomedical Text Proc 2007 Workshop BioNL'07, June 2007, pp. 137-144, Prague, Czech Republic
  • Kilicoglu H, Fiszman M, Demner-Fushman D. Interpreting Consumer Health Questions: The Role of Anaphora and Ellipsis. Proceedings of BioNLP 2013. Pages 54-62.
  • Fiszman M, Rindflesch TC, Kilicoglu H. Interpreting Hypernymic Propositions in an Online Medical Encyclopedia AMIA Annu Symp Proc. 2003:840.
  • Ash JS (Interviewer and Editor), Sittig DF (Interviewer and Editor), Goodwin RM (Editor). Introduction Conversations with Medical Informatics Pioneers: An oral history project.
  • Zhang X, Zou J, Le DX, Thoma GR. Investigator Name Recognition From Medical Journal Articles: A Comparative Study of SVM and Structural SVM International Workshop on Document Analysis Systems. June 2010:121-8
  • Locatis CN, Berner E, Matthews P, Hammack G, Smith S, Maisiak R. Is Student Collocation a Factor in Synchronous Distance Education? International Assoc of Medical Science Educators Annual Meeting; 2008 Jul 25-29; Salt Lake City.
  • Burgun A, Bodenreider O. Issues in Integrating Epidemiology and Research Information in Oncology: Experience with ICD-O3 and the NCI Thesaurus AMIA Annu Symp Proc. 2007 Oct 11:85-9
  • Zarin DA, Ide NC, Tse T, Harlan WR, West JC, Lindberg DA. Issues in the registration of clinical trials. JAMA. 2007 May 16;297(19):2112-20
  • Humphrey SM, Lu C, Rogers W, Browne AC. Journal descriptor indexing tool for categorizing text according to discipline or semantic type. AMIA Annu Symp Proc. 2006:960.
  • Gallagher ME. Keeping the Promises Associated with Your Digital Assets: Is it Possible? In: Archiving 2007 Final Program and Proceedings, pp.146-149, 2007.
  • Jimeno-Yepes A, Aronson AR. Knowledge-based and knowledge-lean methods combined in unsupervised word sense disambiguation. Proc 2nd ACM SIGHIT International Health Informatics (IHI) Symposium 2012, 733-736.
  • Jimeno-Yepes A, Aronson AR. Knowledge-based biomedical word sense disambiguation: comparison of approaches. BMC Bioinformatics. 2010 Nov 22;11:569. doi: 10.1186/1471-2105-11-569.
  • Sneiderman CA, Demner-Fushman D, Fiszman M, Ide NC, Rindflesch TC. Knowledge-Based Methods to Help Clinicians Find Answers in MEDLINE. J Am Med Inform Assoc. 2007 Nov-Dec;14(6):772-80. Epub 2007 Aug 21.
  • Aronson AR, Demner-Fushman D, Humphrey SM, Ide NC, Kim W, Liu H, Loane RF, Mork JG, Smith LH, Tanabe LK, Wilbur WJ, Xie N. Knowledge-intensive and statistical approaches to the retrieval and annotation of genomics MEDLINE citations. The Thirteenth Text Retrieval Conference (TREC 2004). 2004:503-11.
  • Vajda S. Label the many with a few: Semi-automatic medical image modality discovery in a large image collection. IEEE Symposium Series on Computational Intelligence, Orlando, FL, Dec 9-12, 2014
  • Kim J, Hong S, Thoma GR. Labeling Author Affiliations in Biomedical Articles Using Markov Model Classifiers. The 13th International Conference on Data Mining (DMIN2017), pp. 105-110, Las Vegas, USA, July 2017.
  • Browne AC, Divita Guy, Aronson AR, McCray AT. Language and Vocabulary Tools AMIA Annu Symp Proc. 2003:798.
  • Sheets L, Gavino A, Fontelo P. Language Fluency and Other Predictors of International Use of PubMed and MedlinePlus. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2011 Oct 22-26; Washington DC. p. 1779.
  • Zhang S, Bodenreider O. Law and Order: Assessing and Enforcing Compliance with Ontological Modeling Principles in the Foundational Model of Anatomy Comput Biol Med. 2006 Jul-Aug;36(7-8):674-93. Epub 2005 Sep 6.
  • Zhang S, Mork P, Bodenreider O. Lessons Learned from Aligning two Representations of Anatomy Proc of the First International Workshop on Formal Biomedical Knowledge Representation (KR-MED 2004); 2004. p. 102-108.
  • Zhang S, Bodenreider O. Lessons Learned from Cross-Validating Alignments Between Large Anatomical Ontologies Stud Health Technol Inform. 2007;129(Pt 1):822-6
  • Locatis CN, Gaines C, Liu WL, Gill MJ, Ackerman MJ. Lessons learned from ten years of distance learning outreach. J Med Libr Assoc. 2015 Apr;103(2):78-82. doi: 10.3163/1536-5050.103.2.004.
  • Hurdle JF, Botkin J, Rindflesch TC. Leveraging Semantic Knowledge in IRB Databases to Improve Translation Science AMIA Annu Symp Proc. 2007 Oct 11:349-53
  • Blake C, Rindflesch TC. Leveraging syntax to better capture the semantics of elliptical coordinated compound noun phrases. J Biomed Inform. 2017 Aug;72:120-131. doi: 10.1016/j.jbi.2017.07.001. Epub 2017 Jul 4.
  • 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.
  • Kastrin A, Rindflesch TC, Hristovski D. Link prediction in a MeSH co-occurrence network: preliminary results. Stud Health Technol Inform. 2014;205:579-83.
  • Kastrin A, Rindflesch TC, Hristovski D. Link prediction on a network of co-occurring MeSH terms: Towards literature-based discovery. Methods of Information in Medicine 55(4):340-6.
  • Kastrin A, Rindflesch TC, Hristovski D. Link prediction on the Semantic MEDLINE Network. Proceedings of the 17th International conference on Discovery Science.
  • Zou J, Antani SK, Thoma GR. Localizing and Recognizing Labels for Multi-Panel Figures in Biomedical Journals. Proceedings of International Conference on Document Analysis and Recognition, November 13, 2017
  • Zou J, Le DX, Thoma GR. Locating and parsing bibliographic references in HTML medical articles. Int J Doc Anal Recognit. 2010 Jun 1;13(2):107-119.
  • Cohen T, Widdows D, Schvaneveldt RW, Rindflesch TC. Logical Leaps and Quantum Connectives: Forging Paths through Predication Space AAAI-Fall 2010 Symposium on Quantum Informatics for Cognitive, Social, and Semantic Processes
  • Kim I, Thoma GR. Machine Learning with Selective Word Statistics for Automated Classification of Citation Subjectivity in Online Biomedical Articles. Proc. Int’l Conf. Artificial Intelligence (ICAI’17), pp. 201-207, Las Vegas, July 2017.
  • Rosemblat G, Gemoets D, Browne AC, Tse T. Machine Translation-Supported Cross Language Information Retrieval for a Consumer Health Resource AMIA Annu Symp Proc. 2003:564-8.
  • Rae A, Kim J, Le DX, Thoma GR. Main Content Detection in HTML Journal Articles. DocEng ’18: ACM Symposium on Document Engineering 2018, August 28–31, 2018, Halifax, NS, Canada. ACM, New York, NY, USA, 4 pages. https://doi.org/10.1145/3209280.3229115
  • Zhang GQ, Zhu W, Sun M, Tao S, Bodenreider O, Cui L. MaPLE: A MapReduce Pipeline for Lattice-based Evaluation and Its Application to SNOMED CT. Proc IEEE Int Conf Big Data. 2014 Oct;2014:754-759.
  • Sneiderman C, Rosemblat G, Bray B, Fiszman M, Rindflesch TC. Matching Clinical Observations in Published Cardiology Case Reports to LOINC [Abstract]. AMIA Annu Symp Proc; 2009 Nov 14-18; San Francisco. p. 1036.
  • Hauser SE, Demner-Fushman D, Ford GL, Nguyen TQ, Thoma GR. MD on Tap: Point of Care Information Delivery; A Report to the Board of Scientific Counselors September 2005 Technical Report to the LHNCBC Board of Scientific Counselors.
  • Balkanyi L, Schulz S, Cornet R, Bodenreider O. Medical concept representation: the years beyond 2000 [Poster]. Stud Health Technol Inform. 2013;192:1011.
  • Rindflesch TC, Pakhomov SV, Fiszman M, Kilicoglu H, Sanchez VR. Medical facts to support inferencing in natural language processing. AMIA Annu Symp Proc. 2005:634-8.
  • Fung K. Medical Terminologies in Action Technical Report to the LHNCBC Board of Scientific Counselors September 2017
  • Demner-Fushman D, Hauser SE, Humphrey SM, Ford GM, Jacobs JL, Thoma GR. MEDLINE as a Source of Just-in-Time Answers to Clinical Questions. AMIA Annu Symp Proc. 2006:190-4.
  • Jimeno-Yepes A, Mork JG, Wilkowski B, Demner-Fushman D, Aronson AR. MEDLINE MeSH indexing: lessons learned from machine learning and future directions. Proc IHI 2012, 737-742.
  • Leon SA, Fontelo P. MedlinePlus en Espaniol and Spanish-Speakers. AMIA Annu Symp Proc; 2007 Nov 10-14; Chicago. p. 1028.
  • Smith L, Rindflesch TC, Wilbure WJ. MedPost: A Part of Speech Tagger for BioMedical Text Bioinformatics. 2004 Sep 22;20(14):2320-1. Epub 2004 Apr 8
  • Smith L, Rindflesch TC, Wilbure WJ. MedTag: A Collection of Biomedical Annotations Bioinformatics. 2004 Sep 22;20(14):2320-1.
  • Jimeno-Yepes AJ, Plaza L, Mork JG, Aronson AR, Díaz A. MeSH indexing based on automatically generated summaries. BMC Bioinformatics. 2013 Jun 26;14:208. doi: 10.1186/1471-2105-14-208.
  • Jimeno-Yepes A, Wilkowski B, Mork JG, Demner-Fushman D, Aronson AR. MeSH indexing: machine learning and lessons learned. ACM SIGHIT International Health Informatics Symposium, Miami, FL, USA, 2012.
  • Cho D, Mork JG, Aronson A, Demner-Fushman D, Schmidt S, Ozga D, Pash J, Kilbourne J. MeSH on demand: an easy way to identify relevant MeSH terms and related articles from text [Poster]. National Cancer Institute (NCI) Symposium "RNA Biology 2015".
  • Fontelo P, Liu F, Ackerman MJ. MeSH Speller + askMEDLINE: Auto-completes MeSH Terms Then Searches MEDLINE/PubMed via Free-text, Natural Language Queries. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2005 Oct 22-26; Washington DC. p. 957.
  • Raje S, Bhupatiraju R, Abdelrahman H, Busby B. MeSHgram: An Open Source Tool to Visually Browse Co-occurrence of MeSH Terms in PubMed [Poster]. AMIA 2017 Symposium Proceedings.
  • Mayer JE, Fontelo P. Meta-analysis on the effect of text message reminders for HIV-related compliance. AIDS Care. 2017 Apr;29(4):409-417. doi: 10.1080/09540121.2016.1214674. Epub 2016 Aug 1.
  • Ben Abacha A, Demner-Fushman D. Meta-Learning with Selective Data Augmentation for Medical Entity Recognition. International Journal of Computational Linguistics and Applications (IJCLA) 7(2): 167-182 (2016)
  • Mork J, Peters L, Jimeno-Yepes A, Aronson AR, Bodenreider O. MetaMap in the CALBC Workshop II. CALBC Workshop II, March 2011.
  • Demner-Fushman D, Rogers W, Aronson A. MetaMap Lite: an evaluation of a new Java implementation of MetaMap. J Am Med Inform Assoc. 2017 Jul 1;24(4):841-844. doi: 10.1093/jamia/ocw177.
  • Bhupatiraju R, Fung K, Bodenreider O. MetaMapLite in Excel: Biomedical named-entity recognition for non-technical users. Stud Health Technol Inform (Proc Medinfo): 1252.
  • Aronson AR, Mork JG, Neveol A, Shooshan SE, Demner-Fushman D. Methodology for Creating UMLS Content Views Appropriate for Biomedical Natural Language Processing AMIA Annu Symp Proc. 2008 Nov 6:21-5
  • Kayaalp M, Aronson AR, Humphrey SM, Ide NC, Tanabe LK, Smith LH, Demner-Fushman D, Loane RF, Mork JG, Bodenreider O. Methods for accurate retrieval of MEDLINE citations in functional genomics. The Twelfth Text Retrieval Conference (TREC 2003). 2003:441-50.
  • Pearson G. Methods to Store Metadata within Motion JPEG 2000 Files. Technical Report Preprint. May 2005.
  • Zhang R, Adam TJ, Simon G, Cairelli MJ, Rindflesch T, Pakhomov S, Melton GB. Mining Biomedical Literature to Explore Interactions between Cancer Drugs and Dietary Supplements. AMIA Jt Summits Transl Sci Proc. 2015 Mar 23;2015:69-73. eCollection 2015.
  • Demner-Fushman D, Mork JG, Aronson AR. Mining MEDLINE for problems associated with vitamin D. AMIA Annu Symp Proc. 2013 Nov 16;2013:300-8. eCollection 2013.
  • Rodriguez L, Morrison SM, Greenberg K, Demner-Fushman D. Mining the literature for genes associated with placenta-mediated maternal diseases. AMIA Annu Symp Proc. 2018 Apr 16;2017:1498-1506. eCollection 2017.
  • Fontelo P, Liu F, Muin M, Ducut E, Ackerman MJ, Paalan-Vasquez F. MMSPix - A Multimedia Messaging Service (MMS) Medical Images Weblog. AMIA Annu Symp Proc; 2007 Nov 10-14; Chicago. p. 956.
  • Fontelo P, Liu F. Mobile app versus Web app: a comparison using 2008-2012 "PubMed for Handhelds" server data. AMIA Annu Symp Proc. 2013 Nov 16;2013:445-50. eCollection 2013.
  • Altemus AR. Mobile App: Native Voices: Native Peoples' Concepts of Health and Illness
  • Fontelo P. Mobile App: PubMed for Handhelds.
  • Gill MJ, Pearson G, Neve L, Miernicki G, Antani SK, Thoma GR. Mobile App: ReUnite iOS app
  • Thoma GR. Mobile App: Turning the Pages
  • Ducut E, Fontelo P. Mobile Devices in Health Education: Current Use and Practice. J Computing in Higher Education; Fall 2008; 20(2):59-68. Published online 2008 Oct 23. DOI: 10.1007/s12528-008-9003-2.
  • Fontelo P, Liu F, Banez RJ. Mobile Devices, Smartphones and ‘PubMed for Handhelds’. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2010 Nov 13-17; Washington DC. p. 1044.
  • Zhang K, Liu WL, Locatis CN, Ackerman MJ. Mobile Videoconferencing Apps for Telemedicine. Telemed J E Health. 2016 Jan;22(1):56-62. doi: 10.1089/tmj.2015.0027. Epub 2015 Jul 23.
  • Xue Z, Rahman M, Antani SK, Long LR, Demner-Fushman D, Thoma GR. Modality Classification for Searching Figures in Biomedical Literature. Proceedings of the IEEE 29th International Symposium on Computer-Based Medical Systems, pp. 152-157, 2016. doi:10.1109/CBMS.2016.29.
  • Kayaalp M. Modes of De-identification. AMIA Annu Symp Proc. 2018 Apr 16;2017:1044-1050. eCollection 2017.
  • Meyerson JR, Tran EE, Kuybeda O, Chen W, Dimitrov DS, Gorlani A, Verrips T, Lifson JD, Subramaniam S. Molecular structures of trimeric HIV-1 Env in complex with small antibody derivatives. Proc Natl Acad Sci U S A. 2013 Jan 8;110(2):513-8. doi: 10.1073/pnas.1214810110. Epub 2012 Dec 24.
  • Zarin DA, Tse T. Moving Towards Transparency of Clinical Trials Science. 2008 Mar 7;319(5868):1340-2.
  • Rahman MM, Antani S, Long LR, Demner-Fushman D, Thoma GR. Multi-Modal Query Expansion Based on Local Analysis for Medical Image Retrieval. Lecture Notes in Computer Science. First MICCAI International Workshop on Medical Content-Based Retrieval for Clinical Decision Support (MCBR-CDS 2009); part of the 12th International Conference on Medical Image Computing and Computer Assisted Interventio February 2010;5853/2010(doi: 10.1007/978-3-642-11769-5):110-9..
  • Névéol A, Shooshan SE, Humphrey SM, Rindflesch TC, Aronson AR. Multiple approaches to fine-grained indexing of the biomedical literature. Pac Symp Biocomput. 2007:292-303.
  • Lu C, Tormey D, McDreedy L, Browne AC. Multiword frequency analysis based on MEDLINE N - gram set [Poster]. AMIA 2016 Annual Symposium, Chicago, IL, November 12-16, 2016.
  • Kim J, Le DX, Thoma GR. Naive Bayes and SVM Classifiers For Classifying Databank Accession Number Sentences From Online Biomedical Articles IS&T/SPIE's 22nd Annual Symposium on Electronic Imaging. San Jose, CA. January 2010;7534:75340U-1 - 8
  • Kim J, Le DX, Thoma GR. Naive Bayes Classifier for Extracting Bibliographic Information From Biomedical Online Articles Proc 2008 International Conference on Data Mining. Las Vegas, Nevada, USA. July 2008;II:373-8
  • Kim J, Thoma GR. Named Entity Recognition in Affiliations of Biomedical Articles Using Statistics and HMM Classifiers. The 2016 International Conference on Data Mining (DMIN2016), Las Vegas, USA, pp. 236-241, July, 2016.
  • Ben Abacha A, Long LR, Seco de Herrera AG, Antani SK, Wang K, Demner-Fushman D. Named Entity Recognition in Functional Neuroimaging Literature. BIBM 2017
  • Neveol A, Deserno TM, Darmoni SJ, Guld MO, Aronson AR. Natural Language Processing Versus Content-BasedImage Analysis for Medical Document Retrieval J Am Soc Inf Sci Technol. 2008 Sep 18;60(1):123-134
  • Friedman C, Rindflesch TC, Corn M. Natural language processing: state of the art and prospects for significant progress, a workshop sponsored by the National Library of Medicine. J Biomed Inform. 2013 Oct;46(5):765-73. doi: 10.1016/j.jbi.2013.06.004. Epub 2013 Jun 25.
  • Lord AM. Naturally Clean and Wholesome; Women, Sex Education and the United States Public Health Service, 1918-1928 2005:;1-34
  • Le T, Rance B, Bodenreider O. Network visualization of UMLS source vocabularies using semantic groups. AMIA Annu Symp Proc, 2013: p. 90
  • Cairelli MJ, Fiszman M, Zhang H, Rindflesch TC. Networks of neuroinjury semantic predications to identify biomarkers for mild traumatic brain injury. J Biomed Semantics. 2015 May 18;6:25. doi: 10.1186/s13326-015-0022-4. eCollection 2015.
  • Huston M, Williams RJ, Bergeris A, Fun J, Tse T. New style and new content for ClinicalTrials.gov. NLM Tech Bull. 2012 Jul-Aug;(387):e5.
  • Ben Abacha A, De Herrera A, Gayen S, Demner-Fushman D, Antani SK. NLM at ImageCLEF 2017 Caption Task. International Conference of the Cross-Language Evaluation Forum for European Languages 2017 Sep 11 (pp. 358-360). Springer, Cham.
  • Demner-Fushman D, Mork JG. NLM Medical Text Indexer Technical Report to the LHNCBC Board of Scientific Counselors April 2016
  • 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.
  • Mork JG, Bodenreider O, Demner-Fushman D, Doagan RI, Lang F-M, Lu Z, Névéol A, Peters L, Shooshan SE, Aronson AR. NLM's I2B2 tool system description. Third i2b2 Workshop on Natural Language Processing Challenges for Clinical Records, November, San Francisco, 2009
  • Ben Abacha A, Demner-Fushman D. NLM_NIH at SemEval-2017 Task 3: from Question Entailment to Question Similarity for Community Question Answering. In Proceedings of the 11th International Workshop on Semantic Evaluation (SemEval@ACL) 2017: 349-352.
  • Libbus B, Rindflesch TC. NLP-Based Information Extraction for Managing the Molecular Biology Literature Proc AMIA Symp. 2002:445-9.
  • Bernal AB, Tolentino PA, Gavino AI, Fontelo P, Marcelo AB. Nursing informatics: challenges to Philippine nursing curriculum. AMIA Annu Symp Proc; 2008 Nov 8-12; Washington DC. p. 876.
  • Hauser SE, Sabir TF, Thoma GR. OCR Correction Using Historical Relationships from Verified Text in Biomedical Citations Proc. of 2003 Symposium on Document Image Understanding Technology. College Park MD: Institute for Advanced Computer Studies, University of Maryland. 2003 April;: 171-7.
  • Ben Abacha A, Demner-Fushman D. On the Role of Question Summarization and Information Source Restriction in Consumer Health Question Answering. AMIA Informatics Summit, March 2019.
  • Ben Abacha A, Demner-Fushman D. On the Role of Question Summarization and Information Source Restriction in Consumer Health Question Answering. Proceedings of the AMIA 2019 Informatics Summit, San Francisco, CA, USA, March 25-28, 2019.
  • Ben Abacha A, Demner-Fushman D. On the role of question summarization and information source restriction in consumer health question answering. In Proceedings of the AMIA 2019 Informatics Summit, San Francisco, CA, USA, 2019.
  • Ben Abacha A, Demner-Fushman D. On the Summarization of Consumer Health Questions. ACL 2019, Florence, Italy.
  • Ben Abacha A, Demner-Fushman D. On the Summarization of Consumer Health Questions. Proceedings of the 57th Annual Meeting of the Association for Computational Linguistics, Florence, Italy 2019.
  • Zou J, Le DX, Thoma GR. Online Medical Journal Article Layout Analysis Proc SPIE-IS&T Electronic Imaging 2007, SPIE Vol. 6500: 65000V (1-12)
  • Deserno TM, Antani S, Long LR. Ontology of gaps in content-based image retrieval. J Digit Imaging. 2009 Apr;22(2):202-15. doi: 10.1007/s10278-007-9092-x. Epub 2008 Feb 1.
  • Demner-Fushman D, Antani SK, Chachra S, Kushnir M, Gayen S. Open-i Imaging informatics, natural language processing and multi-modal information retrieval - research and development Technical Report to the LHNCBC Board of Scientific Counselors September 2016
  • Sheets L, Liu F, Sarmiento RF, Gavino A, Fontelo P. Optimizing the txt2MEDLINE search portal for low-resource clinical decision support. AMIA Annu Symp Proc. 2013 Nov 16;2013:1277-81. eCollection 2013.
  • De Herrera A, Schaer R, Bromuri S, Müller H. Overview of the ImageCLEF 2016 Medical Task. CLEF working notes 2016, CEUR, 2016.
  • Ben Abacha A, Agichtein E, Pinter Y, Demner-Fushman D. Overview of the Medical QA Task @ TREC 2017 LiveQA Track. TREC, Gaithersburg, MD, 2017.
  • Ben Abacha A, Shivade C, Demner-Fushman D. Overview of the MEDIQA 2019 Shared Task on Textual Inference, Question Entailment and Question Answering. Proceedings of the 18th BioNLP Workshop and Shared Task, Florence, Italy, August 1, 2019.
  • Ben Abacha A, Shivade C, Demner-Fushman D. Overview of the MEDIQA 2019 Shared Task on Textual Inference, Question Entailment and Question Answering. Proceedings of the BioNLP 2019 workshop.
  • Demner-Fushman D, Fung K, Do P, Boyce R, Goodwin T. Overview of the TAC 2018 Drug-Drug Interaction Extraction from Drug Labels Track. Proceedings of the Text Analysis Conference (TAC) 2018, Gaithersburg, MD, USA, November 13-14, 2018.
  • Goodwin T, Demner-Fushman D, Fung K, Do P. Overview of the TAC 2019 Track on Drug-Drug Interaction Extraction from Drug Label. Proceedings of the Text Analysis Conference (TAC) 20 19, Gathersburg, MD, USA, November 12-13, 2019.
  • Le DX, Thoma GR. Page Layout Classification Technique for Biomedical Documents Proc. World Multiconference on Systems, Cybernetics and Informatics (SCI). 2000 Jul.;X: 348-52.
  • Szolovits P, Aberdeen J, Meystre S, Kayaalp M. Panel on: State of the Art of Clinical Narrative Report De-Identification and Its Future [Poster]. Proceedings of the Annual American Medical Informatics Association Fall Symposium: 240–242.
  • Zarin D. Participant-level data and the new frontier in trial transparency [Letter]. N Engl J Med. 2013 Aug 1;369(5):468-9. doi: 10.1056/NEJMe1307268.
  • Xue Z, Long LR, Antani SK, Thoma GR. Pathology-based vertebral image retrieval. Proceedings of the 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2011, March 30 - April 2, 2011, Chicago, Illinois, USA. pages 1893-1896, IEEE, 2011. doi: 10.1109/ISBI.2011.5872778.
  • Marchell R, Locatis CN, Brgess G, Maisiak R, Liu WL, Ackerman M. Patient and Provider Satisfaction with Teledermatology. Telemed J E Health. 2017 Aug;23(8):684-690. doi: 10.1089/tmj.2016.0192. Epub 2017 Apr 4.
  • Kayaalp M. Patient Privacy in the Era of Big Data. Balkan Med J. 2018 Jan 20;35(1):8-17. doi: 10.4274/balkanmedj.2017.0966. Epub 2017 Sep 13.
  • Ford G, Hauser SE, Le DX, Thoma GR. Pattern Matching Techniques for Correcting Low Confidence OCR Words in a Known Context Proc. SPIE., Document Recognition and Retrieval VIII. 2001 Jan;4307:241-9.
  • Walker FL, Gallagher ME, Thoma GR. PDF File Migration to PDF/A: Technical Considerations. Proc IS&T Archiving 2007. Arlington, Virginia, May 2007; 6-11.
  • Thoma G, Antani SK, Gill MJ, Pearson G, Neve L. People Locator: A System for Family Reunification IT Professional Volume 14 Issue 3, May 2012 Pages 13-21 DOI: 10.1109/MITP.2012.25
  • Ripple AM, Mork JG, Schmidt SC, Thomson H, Knecht LS. Performance Comparison of MEDLINE Structured Abstract to Unstructured Abstracts [Poster]. 2014 NIH Research Festival.
  • Locatis C. Performance, Instruction, and Technology in Health Care Education. Chapter 20 in: Reiser RA, Dempsey JV, editors. Trends and Issues in Instructional Design and Technology. Upper Saddle River, New Jersey: Merrill/Prentice Hall; 2007 (second edition). p. 197-208.
  • Bhupatiraju R, Huser V, Fung K. Phenotype modelling tools utilizing standardized EHR data in a Common Data Model format [Poster]. NIH Research Festival 2017.
  • Hensel BK, Fontelo P. Physician Attitudes Toward SMS/Text Messaging in Medicine. AMIA Annu Symp Proc; 2008 Nov 8-12; Washington DC. p. 965.
  • Fontelo P, Liu F, Leon S, Anne A, Ackerman MJ. PICO Linguist and BabelMeSH: Development and Partial Evaluation of Evidence-based Multilanguage Search Tools for MEDLINE/PubMed. In: Kuhn KA, Warren JR, Leong T-Y, editors. Stud Health Technol Inform [Studies in Health Technology and Informatics] -- MEDINFO 2007: Proceedings of the 12th World Congress on Health (Medical) Informatics -- Building Sustainable Health Systems; 2007 Aug 20-24; Brisbane, Australia;129(Part I):817-21. IOS Press.
  • Huser, V, Kayaalp M, Dodd Z, Cimino J. Piloting a deceased subject integrated data repository and protecting privacy of relatives. AMIA Annu Symp Proc. 2014 Nov 14;2014:719-28. eCollection 2014.
  • Zarin DA, Califf R. Point Counterpoint: ClinicalTrials.gov: Bureaucratic Nuisance or Opportunity to Improve the Field? APOR 2010 Nov; 6 (2): 3-5
  • Fontelo P, Liu F, Ackerman MJ. Potential Applications of RFID Technology in Medicine. Telemed J E Health. 2007 Apr;13(2):176-7.
  • Cohen T, Schvaneveldt R, Rindflesch TC. Predication-based semantic indexing: permutations as a means to encode predications in semantic space. AMIA Annu Symp Proc. 2009 Nov 14;2009:114-8.
  • Cohen T, Widdows D, Stephan C, Zinner R, Kim J, Rindflesch TC, Davies P. Predicting high-throughput screening results with scalable literature-based discovery methods. CPT Pharmacometrics Syst Pharmacol. 2014 Oct 8;3:e140. doi: 10.1038/psp.2014.37.
  • Sutton VR, Hauser SE. Preliminary comparison of the SEER and PubMed search engines for answering clinical questions using PubMed on Tap, a PDA-based program for accessing biomedical literature AMIA Annu Symp Proc. 2005:1128
  • Hauser SE, Demner-Fushman D, Ford GM, Jacobs JL, Thoma GR. Preliminary Comparison of Three Search Engines for Point of Care Access to MEDLINE Citations AMIA Annu Symp Proc. 2006:945
  • Logan RA, Shin JH, Park J. Prevailing Impressions of Social Actors in Korean News Coverage of a Public Health Crisis Science Communication. 25:4:399-418 (June 2004)
  • McCray AT, Gallagher ME. Principles for Digital Library Development Communications of the ACM. 2001 May; 44(5): 48-54.
  • Kim GR, Zambrowicz C, Zhang D, Fontelo P, Abbott PA. Promoting the Usability of Online AMIA Symposium Proceedings. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2005 Oct 22-26; Washington DC. p. 1008.
  • Ekong DU, Fontelo P. Prototype telepathology solutions that use the Raspberry Pi and mobile devices. 2017 IEEE Global Humanitarian Technology Conference (GHTC), San Jose CA, 2017: 1-4.
  • Ross JS, Tse T, Zarin DA, Xu H, Zhou L, Krumholz HM. Publication of NIH funded trials registered in ClinicalTrials.gov: cross sectional analysis. BMJ. 2012 Jan 3;344:d7292. doi: 10.1136/bmj.d7292.
  • Muin M, Fontelo P, Ackerman MJ. PubMed informer: Monitoring MEDLINE/PubMed Through E-mail Alerts, SMS, PDA Downloads and RSS Feeds. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2005 Oct 22-26; Washington DC. p. 1057.
  • Muin M, Fontelo P, Ackerman MJ. PubMed Interact: an Interactive Search Application for MEDLINE/PubMed. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2006 Nov 11-15; Washington DC. p. 1039.
  • Hauser SE, Demner-Fushman D, Ford G, Thoma GR. PubMed on Tap: Discovering Design Principles for Online Information Delivery to Handheld Computers Stud Health Technol Inform. 2004;107(Pt 2):1430-3.
  • Fontelo P, Liu F, Ducut EG. QR Code for Medical Information Uses. AMIA Annu Symp Proc; 2008 Nov 8-12; Washington DC. p. 945.
  • Banez RJ, Fontelo P, Marcelo AB, Liu F. QRefer: Using 2D-Barcode Technology for Patient Referral Systems. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2010 Nov 13-17; Washington DC. p. 975.
  • Jimeno-Yepes A, Aronson AR. Query expansion for UMLS Metathesaurus disambiguation based on automatic corpus extraction. ICMLA 2010, Dec 2010.
  • Wei W, Demner-Fushman D, Wang S, Jiang X, Ohno-Machado L. Ranking Medical Subject Headings using a factor graph model. AMIA Jt Summits Transl Sci Proc. 2015 Mar 23;2015:56-63. eCollection 2015.
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  • McCray AT, Dorfman E, Ripple A, Ide NC, Jha M, Katz DG, Loane RF, Tse T. Usability Issues in Developing a Web-Based Consumer Health Site Proc AMIA Symp. 2000:556-60.
  • Sheets L, Gavino A, Liu F, Fontelo P. Usability of Selected Databases for Low-Resource Clinical Decision Support [Poster]. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2012 Nov 3-7; Chicago. p. 1939.
  • Sheets L, Callaghan F, Gavino A, Liu F, Fontelo P. Usability of selected databases for low-resource clinical decision support. Applied Clinical Informatics. 2012;3(3):326-33. DOI: http://dx.doi.org/10.4338/ACI-2012-06-RA-0024.
  • Misra D, Thoma GR. Use of descriptive metadata as a knowledgebase for analyzing data in large textual collections. Proc. IS&T Archiving 2013. Washington D.C. Proc. IS&T Archiving 2013. Washington D.C. pg 193-199.
  • Marcelo A, Isip-Tan IT, Apostol-Nicodemus L, Mesa-Gaerlan FJ, Firaza PN, Faustorilla JF Jr., Gavino A, Fontelo P. Use of Tablet Computers at the Point-of-Care: A Case Study from the Philippines [Poster]. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2012 Nov 3-7; Chicago. p. 1853.
  • Rosemblat G, Tse T. User Study of a Spanish-language ClinicalTrials.gov Prototype System AMIA Annu Symp Proc. 2006:659-63
  • De Herrera A, Schaer R, Antani SK, Müller H. Using Crowdsourcing for Multi-label Biomedical Compound Figure Annotation. In: Carneiro G. et al. (eds) Deep Learning and Data Labeling for Medical Applications. LABELS 2016, DLMIA 2016. Lecture Notes in Computer Science, vol 10008. Springer, Cham
  • Vizenor L, Bodenreider O. Using Dependence Relations in MeSH as a Framework for the Analysis of Disease Information in Medline Proc SMBM-2006, 2006:76-83
  • Ruch P, Geissbuhler A, Gobeill J, Lisacek F, Tbahriti I, Veuthey A, Aronson AR. Using Discourse Analysis to Improve Text Categorization in MEDLINE Stud Health Technol Inform. 2007;129(Pt 1):710-5
  • Lu C, Tormey D, McDreedy L, Browne AC. Using element words to generate (multi)words for the SPECIALIST Lexicon [Poster]. AMIA 2014 Annual Symposium, Washington, DC, November 15-19, 2014, p. 1499. Poster
  • Collins H, Calvo SC, Greenberg K, Forman NL, Morrison SM. Using Genetics Home Reference to Reinforce Patient Education [Poster]. American College of Medical Genetics Annual Meeting, Phoenix, AZ, March 21-25, 2017.
  • Beaudoin DE, Longo N, Logan RA, Jones JP, Mitchell JA. Using information prescriptions to refer patients with metabolic conditions to the Genetics Home Reference website. J Med Libr Assoc. 2011 Jan;99(1):70-6. doi: 10.3163/1536-5050.99.1.012.
  • Lu C, Browne AC, Allen C, Divita G. Using Lexical tools to convert Unicode characters to ASCII AMIA Annu Symp Proc. 2008 Nov 6:1031.
  • Hristovski D, Kastrin A, Dinevski D, Burgun A, Ziberna L, Rindflesch TC. Using Literature-Based Discovery to Explain Adverse Drug Effects. J Med Syst. 2016 Aug;40(8):185. doi: 10.1007/s10916-016-0544-z. Epub 2016 Jun 18.
  • Hristovski D, Peterlin B, Mitchell JA, Humphrey SM. Using literature-based discovery to identify disease candidate genes. Int J Med Inform. March 2005;74(2-4):289-98.
  • Hristovski D, Rindflesch TC, Peterlin B. Using literature-based discovery to identify novel therapeutic approaches. Cardiovasc Hematol Agents Med Chem. 2013 Mar;11(1):14-24.
  • Libbus B, Kilicoglu H, Rindflesch TC, Mork JG, Aronson AR. Using Natural Languge Processing, Locus Link, and the Gene Ontology to Compare OMIM to MEDLINE Proceedings of the HLT-NAACL Workshop on Linking the Biological Literature, Ontologies and Databases: Tools for Users. 2004;:69-76.
  • Zhang R, Cairelli MJ, Fiszman M, Rosemblat G, Kilicoglu H, Rindflesch TC, Pakhomov SV, Melton GB. Using semantic predications to uncover drug-drug interactions in clinical data. J Biomed Inform. 2014 Jun;49:134-47. doi: 10.1016/j.jbi.2014.01.004. Epub 2014 Jan 19.
  • Liu F, Fontelo P. Using Social Networking Resources to Search MEDLINE/PubMed, a Practice Guidelines Database and Journal Club. AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2011 Oct 22-26; Washington DC. p. 1864.
  • Zhang G-Q, Bodenreider O. Using SPARQL to Test for Lattices: Application to Quality Assurance in Biomedical Ontologies In: Patel-Schneider PF, Pan Y, Hitzler P, Mika P, Zhang L, Pan JZ, et al., editors. Proceedings of the 9th International Semantic Web Conference (ISWC 2010), Shanghai, China, November 7-11, 2010. Berlin, Heidelberg: Springer; 2010. p. 273-288.
  • Leroy G, Rindflesch TC. Using Symbolic Knowledge in the UMLS to Disambiguate Words in Small Datasets with a Naive Bayes Classifier Medinfo. 2004 Sept.;2004: 381-385.
  • Jimeno Yepes A, Mork JG, Aronson A. Using the argumentative structure of scientific literature to improve information access [Poster]. BioNLP 2013.
  • Ahlers CB, Hristovski D, Kilicoglu H, Rindflesch TC. Using the Literature-based Discovery Paradigm to Investigate Drug Mechanisms AMIA Annu Symp Proc. 2007 Oct 11:6-10
  • Hauser SE, Demner-Fushman D, Jacobs JL, Humphrey SM, Ford G, Thoma GR. Using Wireless Handheld Computers to Seek Information at the Point of Care: An Evaluation by Clinicians. J Am Med Inform Assoc. 2007 Nov-Dec;14(6):807-15. Epub 2007 Aug 21.
  • Schardt C, Adams MB, Owens T, Jeitz S, Fontelo P. Utilization of the PICO Framework to Improve Searching PubMed for Clinical Questions. BMC Med Inform Decis Mak. 2007 Jun 15;7:16.
  • Locatis CN, Williamson D, Sterrett J, Detzler I, Ackerman MJ. Video medical interpretation over 3G cellular networks: a feasibility study. Telemed J E Health. 2011 Dec;17(10):809-13. doi: 10.1089/tmj.2011.0084. Epub 2011 Oct 19.
  • Liu F, Fontelo P, Muin M, Ackerman MJ. Virtual Evidence Cart - RP (VEC-RP). AMIA Annu Symp Proc [Proceedings of the American Medical Informatics Association Annual Symposium]; 2005 Oct 22-26; Washington DC. p. 1034.
  • Ozturk S, Kayaalp M, McDonald CJ. Visualization of patient prescription history data in emergency care. AMIA Annu Symp Proc. 2014 Nov 14;2014:963-8. eCollection 2014.
  • Kim J, Lobuglio PS, Thoma GR. Visualization of Statistics from MEDLINE. 2016 IEEE 29th International Symposium on Computer-Based Medical Systems (CBMS 2016), Dublin and Belfast, Ireland, pp. 290-291, June, 2016.
  • Mork JG, Demner-Fushman D, Schmidt SC, Aronson A. Vocabulary Density Method for Personalized Indexing of MEDLINE Journals [Poster]. 2014 AMIA Symposium.
  • Ben Abacha A, Hasan SA, Datls W, Liu J, Demner-Fushman D, Muller H. VQA-Med: Overview of the medical visual question answering task at imageclef 2019. CEUR Workshop Proceedings, 9-12, 2019.
  • Fontelo P. Web Interface: askMEDLINE.
  • Fontelo P. Web Interface: BabelMeSH.
  • Fontelo P. Web Interface: Consensus Abstracts.
  • Morrison SM. Web Interface: Genetics Home Reference
  • Lingappa G, Thoma GR, Antani SK. Web Interface: MyMorph
  • Demner-Fushman D, Antani SK, Simpson M. Web Interface: Open-I
  • Fontelo P. Web Interface: Pico (Patient, Intervention, Comparison, and Outcome) Linguist.
  • Fontelo P. Web Interface: PICO (Patient, Intervention, Comparison, and Outcome).
  • Fontelo P. Web Interface: The Bottom Line.
  • Fontelo P. Web Interface: txt2MEDLINE.
  • Tran LQ, Moon CW, Le DX, Thoma GR. Web Page Downloading and Classification Proc. 14th IEEE Symposium on Computer-Based Medical Systems: IEEE Computer Society. 2001 Jul;:321-6.
  • Pearson G, Gill M, Thoma G. Web screening of US nursing homes by location and quality. AMIA Annu Symp Proc. 2008 Nov 6:576-80.08:576-80.
  • Walker FL, Thoma GR. Web-Based Document Image Processing Proc. SPIE: Internet Imaging. 2000 Jan;:268-77.
  • Marcelo AB, Fontelo P. Web-based Health Applications on Handheld Devices. Arch Pathol Lab Med. 2001 Aug;125(8):1015.
  • Locatis C, Fontelo P, Sneiderman C, Ackerman MJ, Uijtdehaage S, Candler C, Stensaas S, Dennis S. Webcasting videoconferences over IP: a synchronous communication experiment. J Am Med Inform Assoc. 2003 Mar-Apr;10(2):150-3. DOI: 10.1197/jamia.M1170.
  • Locatis C. Why Media Matter. Performance Improvement Quarterly. 2007 Mar;20(1):9-22. DOI: 10.1111/j.1937-8327.2007.tb00428.x.
  • Humphrey SM, Rogers W, Kilicoglu H, Demner-Fushman D, Rindflesch TC. Word sense disambiguation by selecting the best semantic type based on journal descriptor indexing: preliminary experiment. J Am Soc Inf Sci Technol. January 2006;57(1):96-113.
  • Sneiderman C, Fontelo P, Ackerman MJ. XO Computer Application to Medical Science Education. J International Assoc of Medical Science Educators: Special Issue Poster Abstracts of the 12th IAMSE Annual Meeting (2008 Jul 25-29; Salt Lake City);18(supplement 2):100.