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Title: Augmenting Epidemiological Models with Point-Of-Care Diagnostics Data

Abstract

Although adoption of newer Point-of-Care (POC) diagnostics is increasing, there is a significant challenge using POC diagnostics data to improve epidemiological models. In this work, we propose a method to process zip-code level POC datasets and apply these processed data to calibrate an epidemiological model. We specifically develop a calibration algorithm using simulated annealing and calibrate a parsimonious equation-based model of modified Susceptible-Infected-Recovered (SIR) dynamics. The results show that parsimonious models are remarkably effective in predicting the dynamics observed in the number of infected patients and our calibration algorithm is sufficiently capable of predicting peak loads observed in POC diagnostics data while staying within reasonable and empirical parameter ranges reported in the literature. Additionally, we explore the future use of the calibrated values by testing the correlation between peak load and population density from Census data. Our results show that linearity assumptions for the relationships among various factors can be misleading, therefore further data sources and analysis are needed to identify relationships between additional parameters and existing calibrated ones. As a result, calibration approaches such as ours can determine the values of newly added parameters along with existing ones and enable policy-makers to make better multi-scale decisions.

Authors:
; ; ; ;
Publication Date:
Research Org.:
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1337764
Alternate Identifier(s):
OSTI ID: 1250407
Grant/Contract Number:  
Seed 7280; AC05-00OR22725
Resource Type:
Published Article
Journal Name:
PLoS ONE
Additional Journal Information:
Journal Name: PLoS ONE Journal Volume: 11 Journal Issue: 4; Journal ID: ISSN 1932-6203
Publisher:
Public Library of Science (PLoS)
Country of Publication:
United States
Language:
English
Subject:
60 APPLIED LIFE SCIENCES; H1N1; algorithms; infectious disease epidemiology; census; data processing; diagnostic medicine; influenza; data acquisition

Citation Formats

Özmen, Özgür, Pullum, Laura L., Ramanathan, Arvind, Nutaro, James J., and Sun, ed., Gui-Quan. Augmenting Epidemiological Models with Point-Of-Care Diagnostics Data. United States: N. p., 2016. Web. https://doi.org/10.1371/journal.pone.0153769.
Özmen, Özgür, Pullum, Laura L., Ramanathan, Arvind, Nutaro, James J., & Sun, ed., Gui-Quan. Augmenting Epidemiological Models with Point-Of-Care Diagnostics Data. United States. https://doi.org/10.1371/journal.pone.0153769
Özmen, Özgür, Pullum, Laura L., Ramanathan, Arvind, Nutaro, James J., and Sun, ed., Gui-Quan. Wed . "Augmenting Epidemiological Models with Point-Of-Care Diagnostics Data". United States. https://doi.org/10.1371/journal.pone.0153769.
@article{osti_1337764,
title = {Augmenting Epidemiological Models with Point-Of-Care Diagnostics Data},
author = {Özmen, Özgür and Pullum, Laura L. and Ramanathan, Arvind and Nutaro, James J. and Sun, ed., Gui-Quan},
abstractNote = {Although adoption of newer Point-of-Care (POC) diagnostics is increasing, there is a significant challenge using POC diagnostics data to improve epidemiological models. In this work, we propose a method to process zip-code level POC datasets and apply these processed data to calibrate an epidemiological model. We specifically develop a calibration algorithm using simulated annealing and calibrate a parsimonious equation-based model of modified Susceptible-Infected-Recovered (SIR) dynamics. The results show that parsimonious models are remarkably effective in predicting the dynamics observed in the number of infected patients and our calibration algorithm is sufficiently capable of predicting peak loads observed in POC diagnostics data while staying within reasonable and empirical parameter ranges reported in the literature. Additionally, we explore the future use of the calibrated values by testing the correlation between peak load and population density from Census data. Our results show that linearity assumptions for the relationships among various factors can be misleading, therefore further data sources and analysis are needed to identify relationships between additional parameters and existing calibrated ones. As a result, calibration approaches such as ours can determine the values of newly added parameters along with existing ones and enable policy-makers to make better multi-scale decisions.},
doi = {10.1371/journal.pone.0153769},
journal = {PLoS ONE},
number = 4,
volume = 11,
place = {United States},
year = {2016},
month = {4}
}

Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
https://doi.org/10.1371/journal.pone.0153769

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