tetano
Editor, Senior Moderator
Int J Med Inform. 2019 Jul 6;131:103915. doi: 10.1016/j.ijmedinf.2019.06.022. [Epub ahead of print]
[h=1]Automatic classification of free-text medical causes from death certificates for reactive mortality surveillance in France.[/h] Baghdadi Y[SUP]1[/SUP], Bourr?e A[SUP]2[/SUP], Robert A[SUP]3[/SUP], Rey G[SUP]3[/SUP], Gallay A[SUP]4[/SUP], Zweigenbaum P[SUP]5[/SUP], Grouin C[SUP]5[/SUP], Fouillet A[SUP]2[/SUP].
[h=3]Author information[/h] 1 Sant? publique France, Division for Data Science, Saint-Maurice, France. Electronic address: yasmine.baghdadi@santepubliquefrance.fr. 2 Sant? publique France, Division for Data Science, Saint-Maurice, France. 3 C?piDc-Inserm, Epidemiology Center on Medical Causes of Death, Kremlin-Bic?tre, France. 4 Sant? publique France, Division of Non communicable Diseases and Injuries, Saint-Maurice, France. 5 LIMSI, CNRS, Universit? Paris-Saclay, Orsay, France.
[h=3]Abstract[/h] [h=4]BACKGROUND:[/h] Mortality surveillance is of fundamental importance to public health surveillance. The real-time recording of death certificates, thanks to Electronic Death Registration System (EDRS), provides valuable data for reactive mortality surveillance based on medical causes of death in free-text format. Reactive mortality surveillance is based on the monitoring of mortality syndromic groups (MSGs). An MSG is a cluster of medical causes of death (pathologies, syndromes or symptoms) that meets the objectives of early detection and impact assessment of public health events. The aim of this study is to implement and measure the performance of a rule-based method and two supervised models for automatic free-text cause of death classification from death certificates in order to implement them for routine surveillance.
[h=4]METHOD:[/h] A rule-based method was implemented using four processing steps: standardization rules, splitting causes of death using delimiters, spelling corrections and dictionary projection. A supervised machine learning method using a linear Support Vector Machine (SVM) classifier was also implemented. Two models were produced using different features (SVM1 based solely on surface features and SVM2 combining surface features and MSGs classified by the rule-based method as feature vectors). The evaluation was conducted using an annotated subset of electronic death certificates received between 2012 and 2016. Classification performance was evaluated on seven MSGs (Influenza, Low respiratory diseases, Asphyxia/abnormal respiration, Acute respiratory disease, Sepsis, Chronic digestive diseases, and Chronic endocrine diseases).
[h=4]RESULTS:[/h] The rule-based method and the SVM2 model displayed a high performance with F-measures over 0.94 for all MSGs. Precision and recall were slightly higher for the rule-based method and the SVM2 model. An error-analysis shows that errors were not specific to an MSG.
[h=4]CONCLUSION:[/h] The high performance of the rule-based method and SVM2 model will allow us to set-up a reactive mortality surveillance system based on free-text death certificates. This surveillance will be an added-value for public health decision making.
Copyright ? 2019 Elsevier B.V. All rights reserved.
[h=4]KEYWORDS:[/h] Automatic classification; Evaluation performance; Medical causes of death; Rule-based method; SVM; Syndromic surveillance
PMID: 31522022 DOI: 10.1016/j.ijmedinf.2019.06.022
[h=1]Automatic classification of free-text medical causes from death certificates for reactive mortality surveillance in France.[/h] Baghdadi Y[SUP]1[/SUP], Bourr?e A[SUP]2[/SUP], Robert A[SUP]3[/SUP], Rey G[SUP]3[/SUP], Gallay A[SUP]4[/SUP], Zweigenbaum P[SUP]5[/SUP], Grouin C[SUP]5[/SUP], Fouillet A[SUP]2[/SUP].
[h=3]Author information[/h] 1 Sant? publique France, Division for Data Science, Saint-Maurice, France. Electronic address: yasmine.baghdadi@santepubliquefrance.fr. 2 Sant? publique France, Division for Data Science, Saint-Maurice, France. 3 C?piDc-Inserm, Epidemiology Center on Medical Causes of Death, Kremlin-Bic?tre, France. 4 Sant? publique France, Division of Non communicable Diseases and Injuries, Saint-Maurice, France. 5 LIMSI, CNRS, Universit? Paris-Saclay, Orsay, France.
[h=3]Abstract[/h] [h=4]BACKGROUND:[/h] Mortality surveillance is of fundamental importance to public health surveillance. The real-time recording of death certificates, thanks to Electronic Death Registration System (EDRS), provides valuable data for reactive mortality surveillance based on medical causes of death in free-text format. Reactive mortality surveillance is based on the monitoring of mortality syndromic groups (MSGs). An MSG is a cluster of medical causes of death (pathologies, syndromes or symptoms) that meets the objectives of early detection and impact assessment of public health events. The aim of this study is to implement and measure the performance of a rule-based method and two supervised models for automatic free-text cause of death classification from death certificates in order to implement them for routine surveillance.
[h=4]METHOD:[/h] A rule-based method was implemented using four processing steps: standardization rules, splitting causes of death using delimiters, spelling corrections and dictionary projection. A supervised machine learning method using a linear Support Vector Machine (SVM) classifier was also implemented. Two models were produced using different features (SVM1 based solely on surface features and SVM2 combining surface features and MSGs classified by the rule-based method as feature vectors). The evaluation was conducted using an annotated subset of electronic death certificates received between 2012 and 2016. Classification performance was evaluated on seven MSGs (Influenza, Low respiratory diseases, Asphyxia/abnormal respiration, Acute respiratory disease, Sepsis, Chronic digestive diseases, and Chronic endocrine diseases).
[h=4]RESULTS:[/h] The rule-based method and the SVM2 model displayed a high performance with F-measures over 0.94 for all MSGs. Precision and recall were slightly higher for the rule-based method and the SVM2 model. An error-analysis shows that errors were not specific to an MSG.
[h=4]CONCLUSION:[/h] The high performance of the rule-based method and SVM2 model will allow us to set-up a reactive mortality surveillance system based on free-text death certificates. This surveillance will be an added-value for public health decision making.
Copyright ? 2019 Elsevier B.V. All rights reserved.
[h=4]KEYWORDS:[/h] Automatic classification; Evaluation performance; Medical causes of death; Rule-based method; SVM; Syndromic surveillance
PMID: 31522022 DOI: 10.1016/j.ijmedinf.2019.06.022