| National Library of Medicine

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)

Abstract | 1_IJCLA.pdf

Abstract Download

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".

Abstract | pub9358.pdf

Abstract Download

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.

Abstract | PMID: 29381145 | PMCID: PMC5789866

Abstract

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.

Abstract | PMID: 28130331

Abstract

Demner-Fushman D, Mork JG, Shooshan SE, Aronson AR. UMLS content views appropriate for NLP processing of the biomedical literature vs. clinical text. J Biomed Inform. 2010 Aug;43(4):587-94. doi: 10.1016/j.jbi.2010.02.005. Epub 2010 Feb 10.

Abstract | pub2009040.pdf | PMID: 20152935 | PMCID: PMC2890296

Abstract Download

Demner-Fushman D, Lin J. Answering Clinical Questions with Knowledge-based and Statistical Techniques Computational Linguistics. 2007 Jan;33(1):63-103

Abstract | pub2007004.pdf

Abstract Download

Demner-Fushman D, Few B, Hauser SE, Thoma GR. Automatically Identifying Health Outcome Information in MEDLINE Records J Am Med Inform Assoc. 2006 Jan-Feb;13(1):52-60. Epub 2005 Oct 12.

Abstract | pub2006005.pdf | PMID: 16221937 | PMCID: PMC1380197

Abstract Download

Fiszman M, Demner-Fushman D, Kilicoglu H, Rindflesch TC. Automatic summarization of MEDLINE citations for evidence-based medical treatment: a topic-oriented evaluation. J Biomed Inform. 2009 Oct;42(5):801-13. doi: 10.1016/j.jbi.2008.10.002. Epub 2008 Nov 5.

Abstract | PMID: 19022398 | PMCID: PMC2776079

Abstract

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

Abstract | PMID: 18579831 | PMCID: PMC2528047

Abstract

Hsu W, Long LR, Antani SK. SPIRS: A Framework for Content-based Image Retrieval from Large Biomedical Databases Stud Health Technol Inform. 2007;129(Pt 1):188-92.

Abstract | pub2007042.pdf | PMID: 17911704

Abstract Download

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

Abstract | pub2007019.pdf | PMID: 17329729 | PMCID: PMC2244877

Abstract Download

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.

Abstract | pub-2012-048.pdf | URL: http://jcse.kiise.org/PublishedPaper/topic_abstract.asp?idx=134

Abstract Download External link

Kayaalp M, Browne AC, Callaghan FM, Dodd Z, Divita G, Ozturk S, McDonald CJ. The pattern of name tokens in narrative clinical text and a comparison of five systems for redacting them. J Am Med Inform Assoc. 2014 May-Jun;21(3):423-31. doi: 10.1136/amiajnl-2013-001689. Epub 2013 Sep 11.

Abstract | PMID: 24026308 | PMCID: PMC3994850 | URL: http://dx.doi.org/10.1136/amiajnl-2013-001689

Abstract External link

Kilicoglu H, Demner-Fushman D, Rindflesch TC, Wilczynski NL, Haynes RB. Towards Automatic Recognition of Scientifically Rigorous Clinical Research Evidence J Am Med Inform Assoc. 2009 Jan-Feb;16(1):25-31. Epub 2008 Oct 24.

Abstract | PMID: 18952929 | PMCID: PMC2605595

Abstract

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

Abstract | URL: http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=6974213

Abstract External link

Lingappa G, Thoma GR, Antani SK. Web Interface: MyMorph

Abstract

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.

Abstract | PMID: 28231809 | PMCID: PMC5324252

Abstract

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.

Abstract | pub2010047.pdf | PMID: 20819859 | PMCID: PMC2995679

Abstract Download

Narum R, Zou J, Antani SK. Semi-Automated Ground-Truth Data Collection and Annotation for Journal Figure Analysis [Poster]. 2016 NIH Research Festival

Abstract | pub9435.pdf

Abstract Download

Roberts K, Shooshan SE, Rodriguez L, Abhyankar S, Kilicoglu H, Demner-Fushman D. The role of fine-grained annotations in supervised recognition of risk factors for heart disease from EHRs. J Biomed Inform. 2015 Dec;58 Suppl:S111-9. doi: 10.1016/j.jbi.2015.06.010. Epub 2015 Jun 26.

Abstract | pub9188.pdf | PMID: 26122527 | PMCID: PMC4988795

Abstract Download

Rodriguez L, Morrison SM, Greenberg K, Demner-Fushman D. Towards Automatic Discovery of Genes Related to Human Placenta [Poster]. Poster Fall AMIA 2016.

Abstract | pub9451.pdf

Abstract Download

Sarrouti M, Quatik EL, Alaoui S. SemBioNLQA: A semantic biomedical question answering system for retrieving exact and ideal answers to natural language questions. Artif Intell Med. 2020 Jan;102:101767. doi: 10.1016/j.artmed.2019.101767. Epub 2019 Nov 28.

Abstract | PMID: 31980104

Abstract

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.

Abstract | pub9985.pdf

Abstract Download

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

Abstract | pub2007071.pdf

Abstract Download

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.

Abstract | PMID: 17712086 | PMCID: PMC2213491

Abstract

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.

Abstract | pub2010026.pdf | PMID: 20657757 | PMCID: PMC2908409

Abstract Download

Thoma GR, Ford G, Demner-Fushman D, Antani SK, Chung M. Software: Panorama

Abstract

Thoma GR. Mobile App: Turning the Pages

Abstract

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.

Abstract | PMID: 27570676 | PMCID: PMC5001748

Abstract

Winnenburg R, Bodenreider O. Coverage of human phenotypes in SNOMED CT [Poster]. SNOMED CT Implementation Showcase, 2014.

Abstract | URL: http://ihtsdo.org/fileadmin/user_upload/doc/showcase/show14/SnomedCtShowcase2014...

Abstract External link

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.

Abstract | PMID: 21658294 | PMCID: PMC3111593

Abstract

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.

Abstract | PMID: 28339690 | PMCID: PMC6080677

Abstract

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.

Abstract | pub2010024.pdf | PMID: 20640222 | PMCID: PMC2903768

Abstract Download

COVID-19 is an emerging, rapidly evolving situation.

Filters

Current SearchReset

Publication Date

Publication Type/Tools

Research Areas

Branch

What are PMID, PMCID, and DOI?

You are here

Current search

Search form

COVID-19 is an emerging, rapidly evolving situation.

Filters

Current SearchReset

Publication Date

Publication Type/Tools

Research Areas

Branch

What are PMID, PMCID, and DOI?

You are here

Current search