Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection.
Agent-based models (ABM) are widely used to study immune systems, providing a procedural and interactive view of the underlying system. The interaction of components and the behavior of individual objects is described procedurally as a function of the internal states and the local interactions, whic...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2015-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC4556515?pdf=render |
| _version_ | 1818940753817108480 |
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| author | Maksudul Alam Xinwei Deng Casandra Philipson Josep Bassaganya-Riera Keith Bisset Adria Carbo Stephen Eubank Raquel Hontecillas Stefan Hoops Yongguo Mei Vida Abedi Madhav Marathe |
| author_facet | Maksudul Alam Xinwei Deng Casandra Philipson Josep Bassaganya-Riera Keith Bisset Adria Carbo Stephen Eubank Raquel Hontecillas Stefan Hoops Yongguo Mei Vida Abedi Madhav Marathe |
| author_sort | Maksudul Alam |
| collection | DOAJ |
| description | Agent-based models (ABM) are widely used to study immune systems, providing a procedural and interactive view of the underlying system. The interaction of components and the behavior of individual objects is described procedurally as a function of the internal states and the local interactions, which are often stochastic in nature. Such models typically have complex structures and consist of a large number of modeling parameters. Determining the key modeling parameters which govern the outcomes of the system is very challenging. Sensitivity analysis plays a vital role in quantifying the impact of modeling parameters in massively interacting systems, including large complex ABM. The high computational cost of executing simulations impedes running experiments with exhaustive parameter settings. Existing techniques of analyzing such a complex system typically focus on local sensitivity analysis, i.e. one parameter at a time, or a close "neighborhood" of particular parameter settings. However, such methods are not adequate to measure the uncertainty and sensitivity of parameters accurately because they overlook the global impacts of parameters on the system. In this article, we develop novel experimental design and analysis techniques to perform both global and local sensitivity analysis of large-scale ABMs. The proposed method can efficiently identify the most significant parameters and quantify their contributions to outcomes of the system. We demonstrate the proposed methodology for ENteric Immune SImulator (ENISI), a large-scale ABM environment, using a computational model of immune responses to Helicobacter pylori colonization of the gastric mucosa. |
| first_indexed | 2024-12-20T06:44:39Z |
| format | Article |
| id | doaj.art-f6e1c2bc8d59456aa2eab0d2117f43e8 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-20T06:44:39Z |
| publishDate | 2015-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-f6e1c2bc8d59456aa2eab0d2117f43e82022-12-21T19:49:46ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01109e013613910.1371/journal.pone.0136139Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection.Maksudul AlamXinwei DengCasandra PhilipsonJosep Bassaganya-RieraKeith BissetAdria CarboStephen EubankRaquel HontecillasStefan HoopsYongguo MeiVida AbediMadhav MaratheAgent-based models (ABM) are widely used to study immune systems, providing a procedural and interactive view of the underlying system. The interaction of components and the behavior of individual objects is described procedurally as a function of the internal states and the local interactions, which are often stochastic in nature. Such models typically have complex structures and consist of a large number of modeling parameters. Determining the key modeling parameters which govern the outcomes of the system is very challenging. Sensitivity analysis plays a vital role in quantifying the impact of modeling parameters in massively interacting systems, including large complex ABM. The high computational cost of executing simulations impedes running experiments with exhaustive parameter settings. Existing techniques of analyzing such a complex system typically focus on local sensitivity analysis, i.e. one parameter at a time, or a close "neighborhood" of particular parameter settings. However, such methods are not adequate to measure the uncertainty and sensitivity of parameters accurately because they overlook the global impacts of parameters on the system. In this article, we develop novel experimental design and analysis techniques to perform both global and local sensitivity analysis of large-scale ABMs. The proposed method can efficiently identify the most significant parameters and quantify their contributions to outcomes of the system. We demonstrate the proposed methodology for ENteric Immune SImulator (ENISI), a large-scale ABM environment, using a computational model of immune responses to Helicobacter pylori colonization of the gastric mucosa.http://europepmc.org/articles/PMC4556515?pdf=render |
| spellingShingle | Maksudul Alam Xinwei Deng Casandra Philipson Josep Bassaganya-Riera Keith Bisset Adria Carbo Stephen Eubank Raquel Hontecillas Stefan Hoops Yongguo Mei Vida Abedi Madhav Marathe Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. PLoS ONE |
| title | Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. |
| title_full | Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. |
| title_fullStr | Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. |
| title_full_unstemmed | Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. |
| title_short | Sensitivity Analysis of an ENteric Immunity SImulator (ENISI)-Based Model of Immune Responses to Helicobacter pylori Infection. |
| title_sort | sensitivity analysis of an enteric immunity simulator enisi based model of immune responses to helicobacter pylori infection |
| url | http://europepmc.org/articles/PMC4556515?pdf=render |
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