Literature DB >> 25346586

Indemics: An Interactive High-Performance Computing Framework for Data Intensive Epidemic Modeling.

Keith R Bisset1, Jiangzhuo Chen1, Suruchi Deodhar2, Xizhou Feng3, Yifei Ma2, Madhav V Marathe2.   

Abstract

We describe the design and prototype implementation of Indemics (Interactive EpidemicSimulation)-a modeling environment utilizing high-performance computing technologies for supporting complex epidemic simulations. Indemics can support policy analysts and epidemiologists interested in planning and control of pandemics. Indemics goes beyond traditional epidemic simulations by providing a simple and powerful way to represent and analyze policy-based as well as individual-based adaptive interventions. Users can also stop the simulation at any point, assess the state of the simulated system, and add additional interventions. Indemics is available to end-users via a web-based interface. Detailed performance analysis shows that Indemics greatly enhances the capability and productivity of simulating complex intervention strategies with a marginal decrease in performance. We also demonstrate how Indemics was applied in some real case studies where complex interventions were implemented.

Entities:  

Keywords:  Design; Human Factors; Performance; infectious disease; interactive computation; modeling and simulation; network dynamics; parallel computation

Year:  2014        PMID: 25346586      PMCID: PMC4207128          DOI: 10.1145/2501602

Source DB:  PubMed          Journal:  ACM Trans Model Comput Simul        ISSN: 1049-3301            Impact factor:   1.075


  25 in total

1.  Percolation and epidemics in a two-dimensional small world.

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Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2002-01-16

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Authors:  J A P Heesterbeek
Journal:  Acta Biotheor       Date:  2002       Impact factor: 1.774

3.  The role of population heterogeneity and human mobility in the spread of pandemic influenza.

Authors:  Stefano Merler; Marco Ajelli
Journal:  Proc Biol Sci       Date:  2009-10-28       Impact factor: 5.349

4.  Improving the evidence base for decision making during a pandemic: the example of 2009 influenza A/H1N1.

Authors:  Marc Lipsitch; Lyn Finelli; Richard T Heffernan; Gabriel M Leung; Stephen C Redd
Journal:  Biosecur Bioterror       Date:  2011-06

5.  A Distributed Platform for Global-Scale Agent-Based Models of Disease Transmission.

Authors:  Jon Parker; Joshua M Epstein
Journal:  ACM Trans Model Comput Simul       Date:  2011-12       Impact factor: 1.075

6.  Reproductive numbers, epidemic spread and control in a community of households.

Authors:  E Goldstein; K Paur; C Fraser; E Kenah; J Wallinga; M Lipsitch
Journal:  Math Biosci       Date:  2009-06-25       Impact factor: 2.144

7.  Comparing large-scale computational approaches to epidemic modeling: agent-based versus structured metapopulation models.

Authors:  Marco Ajelli; Bruno Gonçalves; Duygu Balcan; Vittoria Colizza; Hao Hu; José J Ramasco; Stefano Merler; Alessandro Vespignani
Journal:  BMC Infect Dis       Date:  2010-06-29       Impact factor: 3.090

8.  Comparing effectiveness of top-down and bottom-up strategies in containing influenza.

Authors:  Achla Marathe; Bryan Lewis; Christopher Barrett; Jiangzhuo Chen; Madhav Marathe; Stephen Eubank; Yifei Ma
Journal:  PLoS One       Date:  2011-09-22       Impact factor: 3.240

9.  Strategies for mitigating an influenza pandemic.

Authors:  Neil M Ferguson; Derek A T Cummings; Christophe Fraser; James C Cajka; Philip C Cooley; Donald S Burke
Journal:  Nature       Date:  2006-04-26       Impact factor: 49.962

10.  Pandemic potential of a strain of influenza A (H1N1): early findings.

Authors:  Christophe Fraser; Christl A Donnelly; Simon Cauchemez; William P Hanage; Maria D Van Kerkhove; T Déirdre Hollingsworth; Jamie Griffin; Rebecca F Baggaley; Helen E Jenkins; Emily J Lyons; Thibaut Jombart; Wes R Hinsley; Nicholas C Grassly; Francois Balloux; Azra C Ghani; Neil M Ferguson; Andrew Rambaut; Oliver G Pybus; Hugo Lopez-Gatell; Celia M Alpuche-Aranda; Ietza Bojorquez Chapela; Ethel Palacios Zavala; Dulce Ma Espejo Guevara; Francesco Checchi; Erika Garcia; Stephane Hugonnet; Cathy Roth
Journal:  Science       Date:  2009-05-11       Impact factor: 47.728

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  6 in total

1.  An Interactive, Web-based High Performance Modeling Environment for Computational Epidemiology.

Authors:  Suruchi Deodhar; Keith R Bisset; Jiangzhuo Chen; Yifei Ma; Madhav V Marathe
Journal:  ACM Trans Manag Inf Syst       Date:  2014-07

2.  EpiK: A Knowledge Base for Epidemiological Modeling and Analytics of Infectious Diseases.

Authors:  S M Shamimul Hasan; Edward A Fox; Keith Bisset; Madhav V Marathe
Journal:  J Healthc Inform Res       Date:  2017-11-06

3.  Synthesis of a high resolution social contact network for Delhi with application to pandemic planning.

Authors:  Huadong Xia; Kalyani Nagaraj; Jiangzhuo Chen; Madhav V Marathe
Journal:  Artif Intell Med       Date:  2015-07-04       Impact factor: 5.326

4.  Simulation-free estimation of an individual-based SEIR model for evaluating nonpharmaceutical interventions with an application to COVID-19 in the District of Columbia.

Authors:  Daniel K Sewell; Aaron Miller
Journal:  PLoS One       Date:  2020-11-10       Impact factor: 3.240

5.  Distributed messaging and light streaming system for combating pandemics: A case study on spatial analysis of COVID-19 Geo-tagged Twitter dataset.

Authors:  Yavuz Melih Özgüven; Süleyman Eken
Journal:  J Ambient Intell Humaniz Comput       Date:  2021-06-10

6.  Iterative data-driven forecasting of the transmission and management of SARS-CoV-2/COVID-19 using social interventions at the county-level.

Authors:  Ken Newcomb; Morgan E Smith; Rose E Donohue; Sebastian Wyngaard; Caleb Reinking; Christopher R Sweet; Marissa J Levine; Thomas R Unnasch; Edwin Michael
Journal:  Sci Rep       Date:  2022-01-18       Impact factor: 4.379

  6 in total

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