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  • 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.
    Abstract | PMID:  17911776
  • 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.
    Abstract | pub2004-079.pdf
  • 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
    Abstract
  • Hole WT, Srinivasan S. Discovering Missed Synonymy in a Large Concept-Orientated Methathesaurus AMIA Annu Symp Proc. 2000;():354-8.
    Abstract | pub2000043.pdf | PMID:  11079904
  • 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.
    Abstract | pub2007062.pdf | PMID:  18693897 | PMCID:  PMC2655865
  • 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.
    Abstract | pub2007040.pdf
  • 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.
    Abstract | PMID:  14663965
  • 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.
    Abstract | pub2004-076.pdf
  • Bhupatiraju R, Fung K, Bodenreider O. MetaMapLite in Excel: Biomedical named-entity recognition for non-technical users. Stud Health Technol Inform (Proc Medinfo): 1252.
    Abstract | PMID:  29295337 | PMCID:  PMC5884681
  • 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
    Abstract | PMID:  18998883 | PMCID:  PMC2655934
  • 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.
    Abstract | pub2003-077.pdf | http://trec.nist.gov/pubs/trec12/t12_proceedings.html
  • 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.
    Abstract | pub9572.pdf | PMID:  29854219 | PMCID:  PMC5977710
  • 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.
    Abstract | pub2007003.pdf | PMID:  17990500 | http://psb.stanford.edu/psb-online/proceedings/psb07/abstracts/2007_p292.html
  • 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
    Abstract | pub2010032.pdf
  • Roberts K, Rodriguez L, Shooshan SE, Demner-Fushman D. Resource Classification for Medical Questions. AMIA Annu Symp Proc. 2017 Feb 10;2016:1040-1049. eCollection 2016.
    Abstract | PMID:  28269901 | PMCID:  PMC5333297
  • Demner-Fushman D, Abhyankar S. Syntactic-semantic frames for clinical cohort identification queries. Data Integration in the Life Sciences (DILS) June 2012, LNBI 7348 proceedings. Lecture Notes in Computer Science. 2012;7348:100-112
    Abstract
  • Demner-Fushman D, Abhyankar S. Syntactic-semantic question frames for cohort identification. The 2012 Joint Summits on Translational Science. San Francisco, CA. March 2012.
    Abstract | pub-2012-071.pdf
  • Aronson AR, Mork JG, Gay CW, Humphrey SM, Rogers W. The NLM Indexing Initiative's Medical Text Indexer. Stud Health Technol Inform. 2004;107(Pt 1):268-72.
    Abstract | pub2004-077.pdf | PMID:  15360816