Literature DB >> 28256420

Using data-driven agent-based models for forecasting emerging infectious diseases.

Srinivasan Venkatramanan1, Bryan Lewis2, Jiangzhuo Chen3, Dave Higdon4, Anil Vullikanti5, Madhav Marathe6.   

Abstract

Producing timely, well-informed and reliable forecasts for an ongoing epidemic of an emerging infectious disease is a huge challenge. Epidemiologists and policy makers have to deal with poor data quality, limited understanding of the disease dynamics, rapidly changing social environment and the uncertainty on effects of various interventions in place. Under this setting, detailed computational models provide a comprehensive framework for integrating diverse data sources into a well-defined model of disease dynamics and social behavior, potentially leading to better understanding and actions. In this paper, we describe one such agent-based model framework developed for forecasting the 2014-2015 Ebola epidemic in Liberia, and subsequently used during the Ebola forecasting challenge. We describe the various components of the model, the calibration process and summarize the forecast performance across scenarios of the challenge. We conclude by highlighting how such a data-driven approach can be refined and adapted for future epidemics, and share the lessons learned over the course of the challenge.
Copyright © 2017 The Author(s). Published by Elsevier B.V. All rights reserved.

Entities:  

Keywords:  Agent-based models; Bayesian calibration; Ebola; Emerging infectious diseases; Simulation optimization

Mesh:

Year:  2017        PMID: 28256420      PMCID: PMC5568513          DOI: 10.1016/j.epidem.2017.02.010

Source DB:  PubMed          Journal:  Epidemics        ISSN: 1878-0067            Impact factor:   4.396


  9 in total

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2.  Modelling disease outbreaks in realistic urban social networks.

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3.  Understanding the dynamics of Ebola epidemics.

Authors:  J Legrand; R F Grais; P Y Boelle; A J Valleron; A Flahault
Journal:  Epidemiol Infect       Date:  2006-09-26       Impact factor: 2.451

4.  Ebola--underscoring the global disparities in health care resources.

Authors:  Anthony S Fauci
Journal:  N Engl J Med       Date:  2014-08-13       Impact factor: 91.245

5.  Big data. The parable of Google Flu: traps in big data analysis.

Authors:  David Lazer; Ryan Kennedy; Gary King; Alessandro Vespignani
Journal:  Science       Date:  2014-03-14       Impact factor: 47.728

6.  Spatiotemporal spread of the 2014 outbreak of Ebola virus disease in Liberia and the effectiveness of non-pharmaceutical interventions: a computational modelling analysis.

Authors:  Stefano Merler; Marco Ajelli; Laura Fumanelli; Marcelo F C Gomes; Ana Pastore Y Piontti; Luca Rossi; Dennis L Chao; Ira M Longini; M Elizabeth Halloran; Alessandro Vespignani
Journal:  Lancet Infect Dis       Date:  2015-01-07       Impact factor: 25.071

7.  A Simulation Optimization Approach to Epidemic Forecasting.

Authors:  Elaine O Nsoesie; Richard J Beckman; Sara Shashaani; Kalyani S Nagaraj; Madhav V Marathe
Journal:  PLoS One       Date:  2013-06-27       Impact factor: 3.240

8.  Assessing Google flu trends performance in the United States during the 2009 influenza virus A (H1N1) pandemic.

Authors:  Samantha Cook; Corrie Conrad; Ashley L Fowlkes; Matthew H Mohebbi
Journal:  PLoS One       Date:  2011-08-19       Impact factor: 3.240

9.  Ebola virus disease in West Africa--the first 9 months of the epidemic and forward projections.

Authors:  Bruce Aylward; Philippe Barboza; Luke Bawo; Eric Bertherat; Pepe Bilivogui; Isobel Blake; Rick Brennan; Sylvie Briand; Jethro Magwati Chakauya; Kennedy Chitala; Roland M Conteh; Anne Cori; Alice Croisier; Jean-Marie Dangou; Boubacar Diallo; Christl A Donnelly; Christopher Dye; Tim Eckmanns; Neil M Ferguson; Pierre Formenty; Caroline Fuhrer; Keiji Fukuda; Tini Garske; Alex Gasasira; Stephen Gbanyan; Peter Graaff; Emmanuel Heleze; Amara Jambai; Thibaut Jombart; Francis Kasolo; Albert Mbule Kadiobo; Sakoba Keita; Daniel Kertesz; Moussa Koné; Chris Lane; Jered Markoff; Moses Massaquoi; Harriet Mills; John Mike Mulba; Emmanuel Musa; Joel Myhre; Abdusalam Nasidi; Eric Nilles; Pierre Nouvellet; Deo Nshimirimana; Isabelle Nuttall; Tolbert Nyenswah; Olushayo Olu; Scott Pendergast; William Perea; Jonathan Polonsky; Steven Riley; Olivier Ronveaux; Keita Sakoba; Ravi Santhana Gopala Krishnan; Mikiko Senga; Faisal Shuaib; Maria D Van Kerkhove; Rui Vaz; Niluka Wijekoon Kannangarage; Zabulon Yoti
Journal:  N Engl J Med       Date:  2014-09-22       Impact factor: 91.245

  9 in total
  24 in total

1.  The RAPIDD ebola forecasting challenge: Synthesis and lessons learnt.

Authors:  Cécile Viboud; Kaiyuan Sun; Robert Gaffey; Marco Ajelli; Laura Fumanelli; Stefano Merler; Qian Zhang; Gerardo Chowell; Lone Simonsen; Alessandro Vespignani
Journal:  Epidemics       Date:  2017-08-26       Impact factor: 4.396

2.  Counteracting structural errors in ensemble forecast of influenza outbreaks.

Authors:  Sen Pei; Jeffrey Shaman
Journal:  Nat Commun       Date:  2017-10-13       Impact factor: 14.919

3.  The 2014-2015 Ebola virus disease outbreak and primary healthcare delivery in Liberia: Time-series analyses for 2010-2016.

Authors:  Bradley H Wagenaar; Orvalho Augusto; Jason Beste; Stephen J Toomay; Eugene Wickett; Nelson Dunbar; Luke Bawo; Chea Sanford Wesseh
Journal:  PLoS Med       Date:  2018-02-20       Impact factor: 11.069

4.  An Agent-Based Model for Pathogen Persistence and Cross-Contamination Dynamics in a Food Facility.

Authors:  Amir Mokhtari; Jane M Van Doren
Journal:  Risk Anal       Date:  2018-10-15       Impact factor: 4.000

5.  Stochastic modeling of influenza spread dynamics with recurrences.

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Journal:  PLoS One       Date:  2020-04-21       Impact factor: 3.240

6.  A multi-method approach to modeling COVID-19 disease dynamics in the United States.

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Review 7.  An Ecologically Framed Comparison of The Potential for Zoonotic Transmission of Non-Human and Human-Infecting Species of Malaria Parasite.

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9.  Risk perception and behavioral change during epidemics: Comparing models of individual and collective learning.

Authors:  Shaheen A Abdulkareem; Ellen-Wien Augustijn; Tatiana Filatova; Katarzyna Musial; Yaseen T Mustafa
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10.  Forecasting dengue and influenza incidences using a sparse representation of Google trends, electronic health records, and time series data.

Authors:  Prashant Rangarajan; Sandeep K Mody; Madhav Marathe
Journal:  PLoS Comput Biol       Date:  2019-11-21       Impact factor: 4.475

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