Linguistic approach for identification of medication names and related information in clinical narratives

Journal of the American Medical Informatics Association

Volumn 17, Issue 5, 2010, Pages 549-554

  Hamon, Thierry ^a   Grabar, Natalia ^b,c,d  

^a UNIVERSITÉ PARIS 13   (France)

^b CENTRE DE RECHERCHE DES CORDELIERS   (France)

^c UNIVERSITÉ PARIS DESCARTES   (France)

^d ASSISTANCE PUBLIQUE HÔPITAUX DE PARIS   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ALLOPURINOL; AMIODARONE; AMLODIPINE BESYLATE; ANTIHYPERTENSIVE AGENT; CALCITRIOL; CHLORAL HYDRATE; DIURETIC AGENT; DOCUSATE SODIUM; DOXAZOSIN; ESOMEPRAZOLE; FLECAINIDE; FUROSEMIDE; HYDROCHLOROTHIAZIDE; INSULIN ZINC SUSPENSION; IRON; ISOSORBIDE 5 NITRATE; METHADONE; METOPROLOL; METOPROLOL SUCCINATE; OFLOXACIN; PAVACHOL; PENICILLIN DERIVATIVE; PREDNISONE; SIMVASTATIN; SPIRONOLACTONE; TAMSULOSIN; UNCLASSIFIED DRUG; WARFARIN; DRUG;

ANEMIA; ARTICLE; BRADYCARDIA; DRUG DOSE INCREASE; DRUG INFORMATION; DRUG NOMENCLATURE; DRUG SUBSTITUTION; DRUG WITHDRAWAL; HEART ATRIUM FLUTTER; HUMAN; HYPERPARATHYROIDISM; HYPERTENSION; MEDICAL DOCUMENTATION; MEDICINE; NARRATIVE; NATURAL LANGUAGE PROCESSING; NOCTURIA; OUTCOME ASSESSMENT; PRESCRIPTION; TRAINING; TREATMENT DURATION; COMPUTER PROGRAM; DRUG THERAPY; INFORMATION RETRIEVAL; LINGUISTICS; MEDICAL RECORD; METHODOLOGY;

DRUG THERAPY; ELECTRONIC HEALTH RECORDS; HUMANS; INFORMATION STORAGE AND RETRIEVAL; LINGUISTICS; NATURAL LANGUAGE PROCESSING; PHARMACEUTICAL PREPARATIONS; SOFTWARE DESIGN;

EID: 78149480907     PISSN: 10675027     EISSN: None     Source Type: Journal    
DOI: 10.1136/jamia.2010.004036     Document Type: Article

References (43)

1. WHO. International drug monitoring: the role of national centers. Geneva, Switzerland: World Health Organization, 1972.
2. FDA. Good pharmacovigilance practices and pharmacoepidemiologic assessement. Rockville, MD: Food and Drug Administration, 2005.
3. Pronovost P, Weast B, Schwarz M, et al. Medication reconciliation: a practical tool to reduce the risk of medication errors. J Crit Care 2003;18:201-5.
4. Bates D, Leape L, Cullen D, et al. Effect of computerized physician order entry and a team intervention on prevention of serious medication errors. JAMA 1998;280:1311-16.
5. Teich J, Merchia P, Schmiz J, et al. Effects of computerized physician order entry on prescribing practices. Arch Intern Med 2000;160:2741-7.
6. Oren E, Shaffer E, Guglielmo B. Impact of emerging technologies on medication errors and adverse drug events. Am J Health Syst Pharm 2003;60:1447-58.
7. Boussadi A, Bousquet C, Sabatier B, et al. Specification of business rules for the development of hospital alarm system: application to the pharmaceutical validation. Stud Health Technol Inform 2008;136:145-50.
8. Imming P, Sinning C, Meyer A. Drugs, their targets and the nature and number of drug targets. Nat Rev Drug Discov 2006;5:821-34.
9. Rader D, Daugherty A. Translating molecular discoveries into new therapies for atherosclerosis. Nature 2008;451:904-13.
10. Hale R. Text mining: getting more value from literature resources. Drug Discov Today 2005;10:377-9.
11. McDonald C, Tierney W. The medical gopher - a microcomputer system to help find, organize and decide about patient data. West J Med 1986;145:823-9.
12. Poon E, Blumenfeld B, Hamann C, et al. Design and implementation of an application and associated services to support interdisciplinary medication reconciliation efforts at an integrated healthcare delivery network. J Am Med Inform Assoc 2006;13:581-92.
13. Manley H, Drayer D, McClaran M, et al. Drug record discrepancies in an outpatient electronic medical record: frequency, type, and potential impact on patient care at a hemodialysis center. Pharmacotherapy 2003;23:231-9.
14. Grant R, Devita N, Singer D, et al. Improving adherence and reducing medication discrepancies in patients with diabetes. Ann Pharmacother 2003;37:962-9.
15. Thomsen L, Winterstein A, Søndergaard B, et al. Systematic review of the incidence and characteristics of preventable adverse drug events in ambulatory care. Ann Pharmacother 2007;14:1411-26.
16. Rindflesch T, Tanabe L, Weinstein J, et al. EDGAR: extraction of drugs, genes and relations from the biomedical literature. Pac Symp Biocomput 2008:517-28.
17. Kolárik C, Hofmann-Apitius M, Zimmermann M, et al. Identification of new drug classification ternis in textual resources. Bioinformatics 2007;23:264-72.
18. Chen E, Hripcsak G, Xu H, et al. Automated acquisition of disease drug knowledge from biomedical and clinical documents: an initial study. J Am Med Inform Assoc 2008;15:87-98.
19. Sirohi E, Peissig P. Stufy of effect of drug lexicons on medication extraction from electronic medical records. Pac Symp Biocomput 2005:308-18.
20. Levin M, Krol M, Doshi A, et al. Extraction and mapping of drug names from free text to a standardized nomenclature. AMIA Annu Symp Proc 2007:438-2.
21. Chhieng D, Day T, Gordon G, et al. Use of natural language programming to extract medication from unstructured electronic medical records. AMIA Annu Symp Proc 2007:908-8.
22. Cimino JJ, Bright TJ, Li J. Medication reconciliation using natural language processing and controlled terminologies. Stud Health Technol Inform 2007:679-83
23. WHO. The use of stems in the selection of international nonproprietary names (inn) for pharmaceutical substances. Technical report. Geneva: World Health Organization, 2006.
24. Segura-Bedmar I, Martinez P, Segura-Bedmar M. Drug name recognition and classification in biomedical texts. Drug Safety 2008;13:816-23.
25. Xu R, Morgan A, Das AK, et al. Investigation of unsupervised pattern learning techniques for bootstrap construction of a medical treatment lexicon. Proceedings of the BioNLP 2009 Workshop 63-70.
26. Gold S, Elhadad N, Zhu X, et al. Extracting structured medication event information from discharge summaries. AMIA Annu Symp Proc 2008:237-41.
27. Turchin A, Morin L, Semere L, et al. Comparative evaluation of accuracy of extraction of medication information from narrative physician notes by commercial and academic natural language processing software packages. AMIA Annu Symp Proc 2006:789-93.
28. Jagannathan V, Mullett C, Arbogast J, et al. Assessment of commercial nlp engines for medication information extraction from dictated clinical notes. Int J Med Inform 2009;78:284-91.
29. Evans DA, Brownlow ND, Hersh WR, et al. Automating concept identification in the electronic medical record: an experiment in extracting dosage information. Proc AMIA Annu Fall Symp 1996:388-92.
30. Iglesias JE, Rocks K, Jahanshad N, et al. Tracking medication information across medical records. Proc AMIA Annu Fall Symp 2009:266-70.
31. Xu H, Stenner S, Doan S, et al. MedEx: a medication information extraction system for clinical narratives. J Am Med Inform Assoc 2010;17:19-24.
32. Shah AD, Martinez C. An algorithm to derive a numerical daily dose from unstructured text dosage instructions. Pharmacoepidemiol Drug Saf 2006;15:161-6.
33. Hripcsak G, Friedman C, Alderson P, et al. Unlocking clinical data from narrative reports: a study of natural language processing. Ann Intern Med 1995;122:681-8.
34. Uzuner Ö, Solti I, Cadag E. Extracting medication information from clinical text. J Am Med Inform Assoc 2010;17:514-8.
35. Simon L, Wei M, Robin M, et al. Rxnorm: prescription for electronic drug information exchange. IT Professional 2005;7:17-23.
36. RxNorm, a standardized nomenclature for clinical drugs. Technical report. National Library of Medicine. Bethesda, Maryland, 2009. http://www.nlm.nih.gov/ research/umls/rxnorm/docs/index.html.
37. Côté RA, Rothwell DJ, Palotay JL. SNOMED Internationale - The systematized nomenclature of human and veterinary medicine. College of American Pathologists - American Veterinary Medical Association, Northfield, 1993.
38. Lussier YA, Rothwell DJ, Côté RA. The SNOMED model: a knowledge source for the controlled terminology of the computerized patient record. Methods Inf Med 1998;37:161-4.
39. Hamon T, Nazarenko A, Poibeau T, et al. A robust linguistic platform for efficient and domain specific web content analysis. In Proceedings of RIAO 2007 (electronic edition), Pittsburgh, USA. 2007.
40. Aubin S, Hamon T. Improving term extraction with terminological resources. In: Salakoski T, Ginter F, Pyysalo S, et al, eds. Advances in natural language processing (5th International Conference on NLP, FinTAL 2006), number 4139 in LNAI. Springer, August 2006:380-7.
41. Tsuruoka Y, Tateishi Y, Kim JD, et al. Developing a robust part-of-speech tagger for biomedical text. LNCS 2005;3746:382-92.
42. Charniak E. Immediate-head parsing for language models. In: Proceedings of the 39th Annual Meeting of the Association for Computational Linguistics. 2001:124-31.
43. Klein D, Manning CD. Accurate unlexicalized parsing. In: Proceedings of the 41st Meeting of the Association for Computational Linguistics, 2003:423-30.