Practical parameter identifiability for spatio-temporal models of cell invasion
We examine the practical identifiability of parameters in a spatio-temporal reaction–diffusion model of a scratch assay. Experimental data involve fluorescent cell cycle labels, providing spatial information about cell position and temporal information about the cell cycle phase. Cell cycle labellin...
| Những tác giả chính: | , , , |
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| Định dạng: | Journal article |
| Ngôn ngữ: | English |
| Được phát hành: |
Royal Society
2020
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| _version_ | 1826257059531718656 |
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| author | Simpson, MJ Baker, RE Vittadello, ST Maclaren, OJ |
| author_facet | Simpson, MJ Baker, RE Vittadello, ST Maclaren, OJ |
| author_sort | Simpson, MJ |
| collection | OXFORD |
| description | We examine the practical identifiability of parameters in a spatio-temporal reaction–diffusion model of a scratch assay. Experimental data involve fluorescent cell cycle labels, providing spatial information about cell position and temporal information about the cell cycle phase. Cell cycle labelling is incorporated into the reaction–diffusion model by treating the total population as two interacting subpopulations. Practical identifiability is examined using a Bayesian Markov chain Monte Carlo (MCMC) framework, confirming that the parameters are identifiable when we assume the diffusivities of the subpopulations are identical, but that the parameters are practically non-identifiable when we allow the diffusivities to be distinct. We also assess practical identifiability using a profile likelihood approach, providing similar results to MCMC with the advantage of being an order of magnitude faster to compute. Therefore, we suggest that the profile likelihood ought to be adopted as a screening tool to assess practical identifiability before MCMC computations are performed.
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| first_indexed | 2024-03-06T18:12:07Z |
| format | Journal article |
| id | oxford-uuid:0361fc62-348a-45ee-99be-700a3d05a99f |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T18:12:07Z |
| publishDate | 2020 |
| publisher | Royal Society |
| record_format | dspace |
| spelling | oxford-uuid:0361fc62-348a-45ee-99be-700a3d05a99f2022-03-26T08:45:53ZPractical parameter identifiability for spatio-temporal models of cell invasionJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:0361fc62-348a-45ee-99be-700a3d05a99fEnglishSymplectic ElementsRoyal Society2020Simpson, MJBaker, REVittadello, STMaclaren, OJWe examine the practical identifiability of parameters in a spatio-temporal reaction–diffusion model of a scratch assay. Experimental data involve fluorescent cell cycle labels, providing spatial information about cell position and temporal information about the cell cycle phase. Cell cycle labelling is incorporated into the reaction–diffusion model by treating the total population as two interacting subpopulations. Practical identifiability is examined using a Bayesian Markov chain Monte Carlo (MCMC) framework, confirming that the parameters are identifiable when we assume the diffusivities of the subpopulations are identical, but that the parameters are practically non-identifiable when we allow the diffusivities to be distinct. We also assess practical identifiability using a profile likelihood approach, providing similar results to MCMC with the advantage of being an order of magnitude faster to compute. Therefore, we suggest that the profile likelihood ought to be adopted as a screening tool to assess practical identifiability before MCMC computations are performed. |
| spellingShingle | Simpson, MJ Baker, RE Vittadello, ST Maclaren, OJ Practical parameter identifiability for spatio-temporal models of cell invasion |
| title | Practical parameter identifiability for spatio-temporal models of cell invasion |
| title_full | Practical parameter identifiability for spatio-temporal models of cell invasion |
| title_fullStr | Practical parameter identifiability for spatio-temporal models of cell invasion |
| title_full_unstemmed | Practical parameter identifiability for spatio-temporal models of cell invasion |
| title_short | Practical parameter identifiability for spatio-temporal models of cell invasion |
| title_sort | practical parameter identifiability for spatio temporal models of cell invasion |
| work_keys_str_mv | AT simpsonmj practicalparameteridentifiabilityforspatiotemporalmodelsofcellinvasion AT bakerre practicalparameteridentifiabilityforspatiotemporalmodelsofcellinvasion AT vittadellost practicalparameteridentifiabilityforspatiotemporalmodelsofcellinvasion AT maclarenoj practicalparameteridentifiabilityforspatiotemporalmodelsofcellinvasion |