About: Identification of pneumonia and influenza deaths using the death certificate pipeline

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About: Identification of pneumonia and influenza deaths using the death certificate pipeline Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Identification of pneumonia and influenza deaths using the death certificate pipeline
Creator	Davis, Kailah Duncan, Jeff Facelli, Julio Igo, Sean Staes, Catherine
Source	PMC
abstract	BACKGROUND: Death records are a rich source of data, which can be used to assist with public surveillance and/or decision support. However, to use this type of data for such purposes it has to be transformed into a coded format to make it computable. Because the cause of death in the certificates is reported as free text, encoding the data is currently the single largest barrier of using death certificates for surveillance. Therefore, the purpose of this study was to demonstrate the feasibility of using a pipeline, composed of a detection rule and a natural language processor, for the real time encoding of death certificates using the identification of pneumonia and influenza cases as an example and demonstrating that its accuracy is comparable to existing methods. RESULTS: A Death Certificates Pipeline (DCP) was developed to automatically code death certificates and identify pneumonia and influenza cases. The pipeline used MetaMap to code death certificates from the Utah Department of Health for the year 2008. The output of MetaMap was then accessed by detection rules which flagged pneumonia and influenza cases based on the Centers of Disease and Control and Prevention (CDC) case definition. The output from the DCP was compared with the current method used by the CDC and with a keyword search. Recall, precision, positive predictive value and F-measure with respect to the CDC method were calculated for the two other methods considered here. The two different techniques compared here with the CDC method showed the following recall/ precision results: DCP: 0.998/0.98 and keyword searching: 0.96/0.96. The F-measure were 0.99 and 0.96 respectively (DCP and keyword searching). Both the keyword and the DCP can run in interactive form with modest computer resources, but DCP showed superior performance. CONCLUSION: The pipeline proposed here for coding death certificates and the detection of cases is feasible and can be extended to other conditions. This method provides an alternative that allows for coding free-text death certificates in real time that may increase its utilization not only in the public health domain but also for biomedical researchers and developers. TRIAL REGISTRATION: This study did not involved any clinical trials.
has issue date	2012-05-08(xsd:dateTime)
bibo:doi	10.1186/1472-6947-12-37
bibo:pmid	22569097
has license	cc-by
sha1sum (hex)	26b8ffc652e3d0cdc38236c5930df4b5d6878e41
schema:url	https://doi.org/10.1186/1472-6947-12-37
resource representing a document's title	Identification of pneumonia and influenza deaths using the death certificate pipeline
has PubMed Central identifier	PMC3444937
has PubMed identifier	22569097
schema:publication	BMC Med Inform Decis Mak
resource representing a document's body	covid:26b8ffc652e3d0cdc38236c5930df4b5d6878e41#body_text
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