{"title":"$\\mathbb{R}^2$ 中细胞群 ODE-PDE 模型的同步记忆依赖性胞内振荡","authors":"Merlin Pelz, Michael J. Ward","doi":"arxiv-2409.00623","DOIUrl":null,"url":null,"abstract":"For a cell-bulk ODE-PDE model in $\\mathbb{R}^2$, a hybrid\nasymptotic-numerical theory is developed to provide a new theoretical and\ncomputationally efficient approach for studying how oscillatory dynamics\nassociated with spatially segregated dynamically active ``units\" or ``cells\"\nare regulated by a PDE bulk diffusion field that is both produced and absorbed\nby the entire cell population. The study of oscillator synchronization in a PDE\ndiffusion field was one of the initial aims of Yoshiki Kuramoto's foundational\nwork. For this cell-bulk model, strong localized perturbation theory, as\nextended to a time-dependent setting, is used to derive a new\nintegro-differential ODE system that characterizes intracellular dynamics in a\nmemory-dependent bulk-diffusion field. For this nonlocal reduced system, a\nnovel fast time-marching scheme, relying in part on the\n\\emph{sum-of-exponentials method} to numerically treat convolution integrals,\nis developed to rapidly and accurately compute numerical solutions to the\nintegro-differential system over long time intervals. For the special case of\nSel'kov reaction kinetics, a wide variety of large-scale oscillatory dynamical\nbehavior including phase synchronization, mixed-mode oscillations, and\nquorum-sensing are illustrated for various ranges of the influx and efflux\npermeability parameters, the bulk degradation rate and bulk diffusivity, and\nthe specific spatial configuration of cells. Results from our fast algorithm,\nobtained in under one minute of CPU time on a laptop, are benchmarked against\nPDE simulations of the cell-bulk model, which are performed with a commercial\nPDE solver, that have run-times that are orders of magnitude larger.","PeriodicalId":501321,"journal":{"name":"arXiv - QuanBio - Cell Behavior","volume":"10 1","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2024-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Synchronized Memory-Dependent Intracellular Oscillations for a Cell-Bulk ODE-PDE Model in $\\\\mathbb{R}^2$\",\"authors\":\"Merlin Pelz, Michael J. Ward\",\"doi\":\"arxiv-2409.00623\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"For a cell-bulk ODE-PDE model in $\\\\mathbb{R}^2$, a hybrid\\nasymptotic-numerical theory is developed to provide a new theoretical and\\ncomputationally efficient approach for studying how oscillatory dynamics\\nassociated with spatially segregated dynamically active ``units\\\" or ``cells\\\"\\nare regulated by a PDE bulk diffusion field that is both produced and absorbed\\nby the entire cell population. The study of oscillator synchronization in a PDE\\ndiffusion field was one of the initial aims of Yoshiki Kuramoto's foundational\\nwork. For this cell-bulk model, strong localized perturbation theory, as\\nextended to a time-dependent setting, is used to derive a new\\nintegro-differential ODE system that characterizes intracellular dynamics in a\\nmemory-dependent bulk-diffusion field. For this nonlocal reduced system, a\\nnovel fast time-marching scheme, relying in part on the\\n\\\\emph{sum-of-exponentials method} to numerically treat convolution integrals,\\nis developed to rapidly and accurately compute numerical solutions to the\\nintegro-differential system over long time intervals. For the special case of\\nSel'kov reaction kinetics, a wide variety of large-scale oscillatory dynamical\\nbehavior including phase synchronization, mixed-mode oscillations, and\\nquorum-sensing are illustrated for various ranges of the influx and efflux\\npermeability parameters, the bulk degradation rate and bulk diffusivity, and\\nthe specific spatial configuration of cells. Results from our fast algorithm,\\nobtained in under one minute of CPU time on a laptop, are benchmarked against\\nPDE simulations of the cell-bulk model, which are performed with a commercial\\nPDE solver, that have run-times that are orders of magnitude larger.\",\"PeriodicalId\":501321,\"journal\":{\"name\":\"arXiv - QuanBio - Cell Behavior\",\"volume\":\"10 1\",\"pages\":\"\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-09-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"arXiv - QuanBio - Cell Behavior\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/arxiv-2409.00623\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"arXiv - QuanBio - Cell Behavior","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/arxiv-2409.00623","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
Synchronized Memory-Dependent Intracellular Oscillations for a Cell-Bulk ODE-PDE Model in $\mathbb{R}^2$
For a cell-bulk ODE-PDE model in $\mathbb{R}^2$, a hybrid
asymptotic-numerical theory is developed to provide a new theoretical and
computationally efficient approach for studying how oscillatory dynamics
associated with spatially segregated dynamically active ``units" or ``cells"
are regulated by a PDE bulk diffusion field that is both produced and absorbed
by the entire cell population. The study of oscillator synchronization in a PDE
diffusion field was one of the initial aims of Yoshiki Kuramoto's foundational
work. For this cell-bulk model, strong localized perturbation theory, as
extended to a time-dependent setting, is used to derive a new
integro-differential ODE system that characterizes intracellular dynamics in a
memory-dependent bulk-diffusion field. For this nonlocal reduced system, a
novel fast time-marching scheme, relying in part on the
\emph{sum-of-exponentials method} to numerically treat convolution integrals,
is developed to rapidly and accurately compute numerical solutions to the
integro-differential system over long time intervals. For the special case of
Sel'kov reaction kinetics, a wide variety of large-scale oscillatory dynamical
behavior including phase synchronization, mixed-mode oscillations, and
quorum-sensing are illustrated for various ranges of the influx and efflux
permeability parameters, the bulk degradation rate and bulk diffusivity, and
the specific spatial configuration of cells. Results from our fast algorithm,
obtained in under one minute of CPU time on a laptop, are benchmarked against
PDE simulations of the cell-bulk model, which are performed with a commercial
PDE solver, that have run-times that are orders of magnitude larger.