Identification of methicillin-resistant Staphylococcus aureus within the Nation’s Veterans Affairs Medical Centers using natural language processing

Jones, Makoto; DuVall, Scott L; Spuhl, Joshua; Samore, Matthew H; Nielson, Christopher; Rubin, Michael

doi:10.1186/1472-6947-12-34

- Add this to...
- Twitter
- Facebook
- Google Bookmarks
- LinkedIn

Identification of methicillin-resistant Staphylococcus aureus within the Nation’s Veterans Affairs Medical Centers using natural language processing

Published Date:

Jul 11 2012

Publisher's site:

http://dx.doi.org/10.1186/1472-6947-12-34 New Site Icon

Source:

BMC Med Inform Decis Mak. 2012; 12:34.

[PDF-560.88 KB]

Details:

Personal Authors:

Jones, Makoto ; DuVall, Scott L ; Spuhl, Joshua ; Samore, Matthew H ; Nielson, Christopher ; ... More ▼

Keywords:

[+]

Pubmed ID:

22533507

Pubmed Central ID:

PMC3394221

Description:

Background

Accurate information is needed to direct healthcare systems’ efforts to control methicillin-resistant Staphylococcus aureus (MRSA). Assembling complete and correct microbiology data is vital to understanding and addressing the multiple drug-resistant organisms in our hospitals.

Methods

Herein, we describe a system that securely gathers microbiology data from the Department of Veterans Affairs (VA) network of databases. Using natural language processing methods, we applied an information extraction process to extract organisms and susceptibilities from the free-text data. We then validated the extraction against independently derived electronic data and expert annotation.

Results

We estimate that the collected microbiology data are 98.5% complete and that methicillin-resistant Staphylococcus aureus was extracted accurately 99.7% of the time.

Conclusions

Applying natural language processing methods to microbiology records appears to be a promising way to extract accurate and useful nosocomial pathogen surveillance data. Both scientific inquiry and the data’s reliability will be dependent on the surveillance system’s capability to compare from multiple sources and circumvent systematic error. The dataset constructed and methods used for this investigation could contribute to a comprehensive infectious disease surveillance system or other pressing needs.

Document Type:

Journal Article

Collection(s):

CDC Public Access

Funding:

07FED706504/PHS HHS/United States
5U01CI000334/CI/NCPDCID CDC HHS/United States
UL1 RR024153/RR/NCRR NIH HHS/United States
UL1 TR000005/TR/NCATS NIH HHS/United States

Supporting Files:

	license.txt	text/plain
	1472-6947-12-34-1.gif	image/gif
	1472-6947-12-34-1.jpg	image/jpeg
	1472-6947-12-34-2.gif	image/gif
	1472-6947-12-34-2.jpg	image/jpeg
	1472-6947-12-34-3.gif	image/gif
	1472-6947-12-34-3.jpg	image/jpeg
	1472-6947-12-34.nxml	text/plain

No Related Documents.

You May Also Like:

Drugs of Last Resort? The Use of Polymyxins and Tigecycline at US Veterans Affairs Medical Centers, 2005–2010

Personal Author:

Huttner, Benedikt; Jones, Makoto; Rubin, Michael A.; Neuhauser, Melinda M.; Gundlapalli, Adi; Samore, Matthew;

Published:

May 16 2012

Source:

PLoS One. 2012; 7(5).

Description:

Multidrug-resistant (MDR) and carbapenem-resistant (CR) Gram-negative pathogens are becoming increasingly prevalent around the globe. Polymyxins and tigecycline are among the few antibiotics available to treat infections with these bacteria but littl...

File Type:

[PDF - 1.11 MB]
A Public health action plan to combat antimicrobial resistance; 2012 update

Corporate Author:

United States, Interagency Task Force on Antimicrobial Resistance.. Centers for Disease Control and Prevention (U.S.). National Institutes of Health (U.S.). United States, Food and Drug Administration..

Published:

2012

Description:

In 2001, the Task Force developed an initial Action Plan, outlining specific issues, goals, and actions important for addressing the problem of AR. This document, entitled A Public Health Action Plan to Combat Antimicrobial Resistance, Part I: Domest...

File Type:

[PDF - 2.45 MB]
A Public health action plan to combat antimicrobial resistance

Corporate Author:

United States, Interagency Task Force on Antimicrobial Resistance.. Centers for Disease Control and Prevention (U.S.). National Institutes of Health (U.S.). United States, Food and Drug Administration..

Published:

2011

Description:

In 2001, the Task Force developed an initial Action Plan, outlining specific issues, goals, and actions important for addressing the problem of AR. This document, entitled A Public Health Action Plan to Combat Antimicrobial Resistance, Part I: Domest...

File Type:

[PDF - 3.52 MB]
Staphylococcus aureus Infections in US Veterans, Maryland, USA, 1999–20081

Personal Author:

Tracy, LaRee A.; Furuno, Jon P.; Harris, Anthony D.; Singer, Mary; Langenberg, Patricia; Roghmann, Mary-Claire;

Published:

Mar 2011

Source:

Emerg Infect Dis. 17(3):441-448.

Description:

Trends in Staphylococcus aureus infections are not well described. To calculate incidence in overall S. aureus infection and invasive and noninvasive infections according to methicillin susceptibility and location, we conducted a 10-year population-b...

File Type:

[PDF - 297.61 KB]
Inventory of projects : Progress report: Implementation of A Public Health Action Plan To Combat Antimicrobial Resistance (Part I: Domestic issues)

Corporate Author:

United States. Interagency Task Force on Antimicrobial Resistance.

Published:

6/23/2004

Description:

Publication date from document properties.

File Type:

[PDF - 553.06 KB]