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Published in: BMC Medical Informatics and Decision Making 1/2012

Open Access 01-12-2012 | Research article

Automatic identification and normalization of dosage forms in drug monographs

Authors: Jiao Li, Zhiyong Lu

Published in: BMC Medical Informatics and Decision Making | Issue 1/2012

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Abstract

Background

Each day, millions of health consumers seek drug-related information on the Web. Despite some efforts in linking related resources, drug information is largely scattered in a wide variety of websites of different quality and credibility.

Methods

As a step toward providing users with integrated access to multiple trustworthy drug resources, we aim to develop a method capable of identifying drug's dosage form information in addition to drug name recognition. We developed rules and patterns for identifying dosage forms from different sections of full-text drug monographs, and subsequently normalized them to standardized RxNorm dosage forms.

Results

Our method represents a significant improvement compared with a baseline lookup approach, achieving overall macro-averaged Precision of 80%, Recall of 98%, and F-Measure of 85%.

Conclusions

We successfully developed an automatic approach for drug dosage form identification, which is critical for building links between different drug-related resources.
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Literature
5.
go back to reference Jensen LJ, Saric J, Bork P: Literature mining for the biologist: from information retrieval to biological discovery. Nat Rev Genet. 2006, 7 (2): 119-129. 10.1038/nrg1768.CrossRefPubMed Jensen LJ, Saric J, Bork P: Literature mining for the biologist: from information retrieval to biological discovery. Nat Rev Genet. 2006, 7 (2): 119-129. 10.1038/nrg1768.CrossRefPubMed
6.
go back to reference Wang X, Chase HS, Li J, Hripcsak G, Friedman C: Integrating Heterogeneous Knowledge Sources to Acquire Executable Drug-Related Knowledge. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 852-856. Wang X, Chase HS, Li J, Hripcsak G, Friedman C: Integrating Heterogeneous Knowledge Sources to Acquire Executable Drug-Related Knowledge. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 852-856.
7.
go back to reference Neveol A, Lu Z: Automatic integration of drug indications from multiple health resources. Proceedings of the 1st ACM International Health Informatics Symposium. 2010, Arlington, Virginia, U.S.: ACM, 666-673. Neveol A, Lu Z: Automatic integration of drug indications from multiple health resources. Proceedings of the 1st ACM International Health Informatics Symposium. 2010, Arlington, Virginia, U.S.: ACM, 666-673.
8.
go back to reference Li J, Zhu X, Chen JY: Building disease-specific drug-protein connectivity maps from molecular interaction networks and PubMed abstracts. PLoS Comput Biol. 2009, 5 (7): e1000450-10.1371/journal.pcbi.1000450.CrossRefPubMedPubMedCentral Li J, Zhu X, Chen JY: Building disease-specific drug-protein connectivity maps from molecular interaction networks and PubMed abstracts. PLoS Comput Biol. 2009, 5 (7): e1000450-10.1371/journal.pcbi.1000450.CrossRefPubMedPubMedCentral
9.
go back to reference Harpaz R, Haerian K, Chase HS, Friedman C: Statistical Mining of Potential Drug Interaction Adverse Effects in FDA's Spontaneous Reporting System. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 281-285. Harpaz R, Haerian K, Chase HS, Friedman C: Statistical Mining of Potential Drug Interaction Adverse Effects in FDA's Spontaneous Reporting System. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 281-285.
10.
go back to reference Venkataramanan R, Jain A, Cadoff E, Warty V, Iwasaki K, Nagase K, Krajack A, Imventarza O, Todo S, Fung JJ: Pharmacokinetics of FK 506: preclinical and clinical studies. Transplant Proc. 1990, 22 (1): 52-56.PubMedPubMedCentral Venkataramanan R, Jain A, Cadoff E, Warty V, Iwasaki K, Nagase K, Krajack A, Imventarza O, Todo S, Fung JJ: Pharmacokinetics of FK 506: preclinical and clinical studies. Transplant Proc. 1990, 22 (1): 52-56.PubMedPubMedCentral
11.
go back to reference Peters L, Kapusnik-Uner JE, Bodenreider O: Methods for Managing Variation in Clinical Drug Names. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 637-641. Peters L, Kapusnik-Uner JE, Bodenreider O: Methods for Managing Variation in Clinical Drug Names. Proceedings of AMIA 2010 Annual Symposium. 2010, Washington DC, U.S.: AMIA, 637-641.
12.
go back to reference Uzuner O, Solti I, Cadag E: Extracting medication information from clinical text. J Am Med Inform Assoc. 2010, 17 (5): 514-518. 10.1136/jamia.2010.003947.CrossRefPubMedPubMedCentral Uzuner O, Solti I, Cadag E: Extracting medication information from clinical text. J Am Med Inform Assoc. 2010, 17 (5): 514-518. 10.1136/jamia.2010.003947.CrossRefPubMedPubMedCentral
13.
go back to reference Xu H, Stenner SP, Doan S, Johnson KB, Waitman LR, Denny JC: MedEx: a medication information extraction system for clinical narratives. J Am Med Inform Assoc. 2010, 17 (1): 19-24. 10.1197/jamia.M3378.CrossRefPubMedPubMedCentral Xu H, Stenner SP, Doan S, Johnson KB, Waitman LR, Denny JC: MedEx: a medication information extraction system for clinical narratives. J Am Med Inform Assoc. 2010, 17 (1): 19-24. 10.1197/jamia.M3378.CrossRefPubMedPubMedCentral
14.
go back to reference Zhou L, Plasek JM, Mahoney LM, Karipineni N, Chang F, Yan X, Chang F, Dimaggio D, Goldman DS, Rocha RA: Using Medical Text Extraction, Reasoning and Mapping System (MTERMS) to Process Medication Information in Outpatient Clinical Notes. Proceedings of AMIA 2011 Annual Symposium. 2011, Washington DC, U.S: AMIA, 1639-1648. Zhou L, Plasek JM, Mahoney LM, Karipineni N, Chang F, Yan X, Chang F, Dimaggio D, Goldman DS, Rocha RA: Using Medical Text Extraction, Reasoning and Mapping System (MTERMS) to Process Medication Information in Outpatient Clinical Notes. Proceedings of AMIA 2011 Annual Symposium. 2011, Washington DC, U.S: AMIA, 1639-1648.
15.
go back to reference Cimino JJ, Bright TJ, Li J: Medication reconciliation using natural language processing and controlled terminologies. Stud Health Technol Inform. 2007, 129 (Pt 1): 679-683.PubMed Cimino JJ, Bright TJ, Li J: Medication reconciliation using natural language processing and controlled terminologies. Stud Health Technol Inform. 2007, 129 (Pt 1): 679-683.PubMed
16.
go back to reference Poon EG, Blumenfeld B, Hamann C, Turchin A, Graydon-Baker E, McCarthy PC, Poikonen J, Mar P, Schnipper JL, Hallisey RK: 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 (6): 581-592. 10.1197/jamia.M2142.CrossRefPubMedPubMedCentral Poon EG, Blumenfeld B, Hamann C, Turchin A, Graydon-Baker E, McCarthy PC, Poikonen J, Mar P, Schnipper JL, Hallisey RK: 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 (6): 581-592. 10.1197/jamia.M2142.CrossRefPubMedPubMedCentral
21.
go back to reference Ananiadou S, McNaught J: Text Mining for Biology and Biomedicine. 2006, Norwood: ARTECH HOUSE Ananiadou S, McNaught J: Text Mining for Biology and Biomedicine. 2006, Norwood: ARTECH HOUSE
Metadata
Title
Automatic identification and normalization of dosage forms in drug monographs
Authors
Jiao Li
Zhiyong Lu
Publication date
01-12-2012
Publisher
BioMed Central
Published in
BMC Medical Informatics and Decision Making / Issue 1/2012
Electronic ISSN: 1472-6947
DOI
https://doi.org/10.1186/1472-6947-12-9

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