Literature DB >> 19435614

ConText: an algorithm for determining negation, experiencer, and temporal status from clinical reports.

Henk Harkema1, John N Dowling, Tyler Thornblade, Wendy W Chapman.   

Abstract

In this paper we describe an algorithm called ConText for determining whether clinical conditions mentioned in clinical reports are negated, hypothetical, historical, or experienced by someone other than the patient. The algorithm infers the status of a condition with regard to these properties from simple lexical clues occurring in the context of the condition. The discussion and evaluation of the algorithm presented in this paper address the questions of whether a simple surface-based approach which has been shown to work well for negation can be successfully transferred to other contextual properties of clinical conditions, and to what extent this approach is portable among different clinical report types. In our study we find that ConText obtains reasonable to good performance for negated, historical, and hypothetical conditions across all report types that contain such conditions. Conditions experienced by someone other than the patient are very rarely found in our report set. A comprehensive solution to the problem of determining whether a clinical condition is historical or recent requires knowledge above and beyond the surface clues picked up by ConText.

Entities:  

Mesh:

Year:  2009        PMID: 19435614      PMCID: PMC2757457          DOI: 10.1016/j.jbi.2009.05.002

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN: 1532-0464            Impact factor:   6.317


  26 in total

1.  A statistical natural language processor for medical reports.

Authors:  R K Taira; S G Soderland
Journal:  Proc AMIA Symp       Date:  1999

2.  Effective mapping of biomedical text to the UMLS Metathesaurus: the MetaMap program.

Authors:  A R Aronson
Journal:  Proc AMIA Symp       Date:  2001

3.  Evaluation of negation phrases in narrative clinical reports.

Authors:  W W Chapman; W Bridewell; P Hanbury; G F Cooper; B G Buchanan
Journal:  Proc AMIA Symp       Date:  2001

4.  MEDSYNDIKATE--a natural language system for the extraction of medical information from findings reports.

Authors:  Udo Hahn; Martin Romacker; Stefan Schulz
Journal:  Int J Med Inform       Date:  2002-12-04       Impact factor: 4.046

5.  Creating a text classifier to detect radiology reports describing mediastinal findings associated with inhalational anthrax and other disorders.

Authors:  Wendy Webber Chapman; Gregory F Cooper; Paul Hanbury; Brian E Chapman; Lee H Harrison; Michael M Wagner
Journal:  J Am Med Inform Assoc       Date:  2003-06-04       Impact factor: 4.497

6.  A simple algorithm for identifying negated findings and diseases in discharge summaries.

Authors:  W W Chapman; W Bridewell; P Hanbury; G F Cooper; B G Buchanan
Journal:  J Biomed Inform       Date:  2001-10       Impact factor: 6.317

7.  Identifying respiratory findings in emergency department reports for biosurveillance using MetaMap.

Authors:  Wendy W Chapman; Marcelo Fiszman; John N Dowling; Brian E Chapman; Thomas C Rindflesch
Journal:  Stud Health Technol Inform       Date:  2004

8.  Implementation and evaluation of a negation tagger in a pipeline-based system for information extract from pathology reports.

Authors:  Kevin J Mitchell; Michael J Becich; Jules J Berman; Wendy W Chapman; John Gilbertson; Dilip Gupta; James Harrison; Elizabeth Legowski; Rebecca S Crowley
Journal:  Stud Health Technol Inform       Date:  2004

9.  Machine learning and rule-based approaches to assertion classification.

Authors:  Ozlem Uzuner; Xiaoran Zhang; Tawanda Sibanda
Journal:  J Am Med Inform Assoc       Date:  2008-10-24       Impact factor: 4.497

10.  A general natural-language text processor for clinical radiology.

Authors:  C Friedman; P O Alderson; J H Austin; J J Cimino; S B Johnson
Journal:  J Am Med Inform Assoc       Date:  1994 Mar-Apr       Impact factor: 4.497

View more
  128 in total

1.  Using Medical Text Extraction, Reasoning and Mapping System (MTERMS) to process medication information in outpatient clinical notes.

Authors:  Li Zhou; Joseph M Plasek; Lisa M Mahoney; Neelima Karipineni; Frank Chang; Xuemin Yan; Fenny Chang; Dana Dimaggio; Debora S Goldman; Roberto A Rocha
Journal:  AMIA Annu Symp Proc       Date:  2011-10-22

2.  A system for coreference resolution for the clinical narrative.

Authors:  Jiaping Zheng; Wendy W Chapman; Timothy A Miller; Chen Lin; Rebecca S Crowley; Guergana K Savova
Journal:  J Am Med Inform Assoc       Date:  2012-01-31       Impact factor: 4.497

3.  Developing a natural language processing application for measuring the quality of colonoscopy procedures.

Authors:  Henk Harkema; Wendy W Chapman; Melissa Saul; Evan S Dellon; Robert E Schoen; Ateev Mehrotra
Journal:  J Am Med Inform Assoc       Date:  2011-09-21       Impact factor: 4.497

4.  Comparison of UMLS terminologies to identify risk of heart disease using clinical notes.

Authors:  Chaitanya Shivade; Pranav Malewadkar; Eric Fosler-Lussier; Albert M Lai
Journal:  J Biomed Inform       Date:  2015-09-12       Impact factor: 6.317

Review 5.  Identifying risk factors for heart disease over time: Overview of 2014 i2b2/UTHealth shared task Track 2.

Authors:  Amber Stubbs; Christopher Kotfila; Hua Xu; Özlem Uzuner
Journal:  J Biomed Inform       Date:  2015-07-22       Impact factor: 6.317

6.  Using large clinical corpora for query expansion in text-based cohort identification.

Authors:  Dongqing Zhu; Stephen Wu; Ben Carterette; Hongfang Liu
Journal:  J Biomed Inform       Date:  2014-03-26       Impact factor: 6.317

7.  Text mining for adverse drug events: the promise, challenges, and state of the art.

Authors:  Rave Harpaz; Alison Callahan; Suzanne Tamang; Yen Low; David Odgers; Sam Finlayson; Kenneth Jung; Paea LePendu; Nigam H Shah
Journal:  Drug Saf       Date:  2014-10       Impact factor: 5.606

8.  Using natural language processing to extract mammographic findings.

Authors:  Hongyuan Gao; Erin J Aiello Bowles; David Carrell; Diana S M Buist
Journal:  J Biomed Inform       Date:  2015-02-03       Impact factor: 6.317

9.  Comparison of machine learning classifiers for influenza detection from emergency department free-text reports.

Authors:  Arturo López Pineda; Ye Ye; Shyam Visweswaran; Gregory F Cooper; Michael M Wagner; Fuchiang Rich Tsui
Journal:  J Biomed Inform       Date:  2015-09-16       Impact factor: 6.317

10.  Cue-based assertion classification for Swedish clinical text--developing a lexicon for pyConTextSwe.

Authors:  Sumithra Velupillai; Maria Skeppstedt; Maria Kvist; Danielle Mowery; Brian E Chapman; Hercules Dalianis; Wendy W Chapman
Journal:  Artif Intell Med       Date:  2014-01-25       Impact factor: 5.326

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.