RIDeM is one of the LHNCBC Clinical Decision Support projects. The long-term goal of the Repository for Informed Decision Making
is to provide access to key facts needed to support clinical decision making. The facts are extracted from biomedical literature
and clinical text sources. The development of the Repository is guided by the Evidence Based Medicine (EBM) principles for finding
and appraising information. |
The current prototype implementation extracts key clinical concepts from clinical text, MEDLINE® abstracts and
PubMed Central (PMC) Open Access Subset using MetaMap and UMLS. Key facts in the form of clinical outcomes (bottom-line advice) and other descriptors
of a clinical study (for example, number of participants) are extracted from publications found using Essie
or PubMed and search parameters specified in the clients' requests. |
- Demner-Fushman D, Abhyankar S, Callaghan FM, McDonald CJ. Extracting sources of admission and discharge
destinations from discharge summaries. AMIA 2011 Fall Symposium.
- Callaghan FM, Demner-Fushman D, Abhyankar S, McDonald CJ. Addressing errors in a retrospective observational
ICU database AMIA 2011 Fall Symposium.
- Jimeno-Yepes A, Wilkowski B, Mork JG, Van Lenten E, Demner-Fushman D, Aronson AR. A bottom-up approach to
MEDLINE indexing recommendations. AMIA 2011 Fall Symposium
- Apostolova E, Tomuro N, Demner-Fushman D.
Automatic Extraction of Lexico-Syntactic Patterns for Detection of Negation and Speculation Scopes.
ACL 2011:283-287.
- Rance B, Demner-Fushman D, Rindflesch TC, Bodenreider O. Exploring automatic approaches to extracting
pharmacogenomic information from the biomedical literature. Proceedings of the 2011 PSB Workshop on Mining the
Pharmacogenomics Literature 2011.
- 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):587–594
- Demner-Fushman D, Karpinski J, Thoma GR. Automatically building a
repository to support evidence based practice. Proceedings of the
2nd Workshop on Building and evaluating resources for biomedical text
mining (BioTxtM 2010), 7th Language Resources and Evaluation
Conference (LREC 2010). May 17-23, Valetta, Malta
- Bekhuis T, Demner-Fushman D. Towards automating the initial
screening phase of a systematic review. Proceedings of the 13th World
Congress on Medical and Health Informatics (MEDINFO 2010). 2010 Sep
12-15; Cape Town, South Africa. IOS Press
- Apostolova E, Channin DS, Demner-Fushman D, Furst J, Lytinen S,
Raicu D. Automatic
segmentation of clinical texts. Conf Proc IEEE Eng Med Biol Soc.
2009;2009:5905-8.
- Demner-Fushman D, Mork JG, Shooshan SE, Aronson AR. UMLS Content
Views Appropriate for NLP Processing of the Biomedical Literature vs.
Clinical Text. AMIA Annu Symp Proc. San Francisco, CA, November
2009.
- Overby CL, Tarczy-Hornoch P, Demner-Fushman D. The potential for
automated question answering in the context of genomic medicine: an
assessment of existing resources and properties of answers. BMC
Bioinformatics. 2009 Sep 17;10 Suppl 9:S8.
- Overby CL, Tarczy-Hornoch P, Demner-Fushman D. The Potential
for Automated Question Answering in the Context of Genomic Medicine: An
Assessment of Existing Resources and Properties of Answers. In
Proceedings of the 2009 AMIA Summit on Translational Bioinformatics.
March 15-17, 2009 San Francisco, California
- 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.
- 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.
- Kilicoglu H, Demner-Fushman D, Rindflesch TC, Wilczynski NL,
Haynes RB.
Toward Automatic Recognition of High Quality Clinical Evidence.
AMIA Annu Symp Proc. 2008 Nov 6:368.
- 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.
- 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. December 2007;14(6):772-780
- Ahlers CB, Fiszman M, Demner-Fushman D, Lang FM, Rindflesch TC. Extracting semantic
predications from Medline citations for pharmacogenomics. Pac Symp
Biocomput. 2007:209-20.
- Lin J, Demner-Fushman D. Semantic clustering
of answers to clinical questions. AMIA Annu Symp Proc. 2007 Oct
11:458-62.
- Fiszman M, Demner-Fushman D, Lang FM, Goetz P, Rindflesch TC. Interpreting
Comparative Constructions in Biomedical Text. Proc. 2007 Workshop
on Biomedical Natural Language Processing (BioNLP'07). Prague, Czech
Republic. June 2007:137-44
- Demner-Fushman D, Lin J. Answering
Clinical Questions with Knowledge-Based and Statistical Techniques.
Computational
Linguistics. March 2007;33(1):63-103
- Huang X, Lin J, Demner-Fushman D. Evaluation of PICO
as a knowledge representation for clinical questions. AMIA Annu
Symp Proc. 2006:359-63.
- 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.
- Demner-Fushman D, Lin J. Answer
Extraction, Semantic Clustering, and Extractive Summarization for
Clinical Question Answering. Proceedings of the 21st International
Conference on Computational Linguistics. Sydney, Australia. July
2006:841-8
- Demner-Fushman D, Lin J. Situated Question Answering in the
Clinical Domain: Selecting the Best Drug Treatment for Diseases.
Proceedings of COLING/ACL 2006 Workshop on Task-Focused Summarization
and Question Answering. Sydney, Australia. July 2006:24-31
- Demner-Fushman D, Hauser S, Thoma G. The role of title,
metadata and abstract in identifying clinically relevant journal
articles. AMIA Annu Symp Proc. 2005:191-5.
- Demner-Fushman D, Few B, Hauser SE, Thoma G. Automatically
identifying health outcome information in MEDLINE records. J Am Med
Inform Assoc. 2006 Jan-Feb;13(1):52-60.
- Demner-Fushman D, Hauser SE, Ford G, Thoma GR. Organizing
literature information for clinical decision support. Stud Health
Technol Inform. 2004;107(Pt 1):602-6.