On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling
The correspondence between mathematical structures and experimental systems is the basis of the generalizability of results found with specific systems, and is the basis of the predictive power of theoretical physics. While physicists have confidence in this correspondence, it is less recognized in...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English English |
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AIP Publishing
2018
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| Online Access: | https://eprints.nottingham.ac.uk/50410/ |
| _version_ | 1848798244627283968 |
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| author | Falcke, Martin Moein, Mahsa Tilunaite, Agne Thul, Ruediger Skupin, Alexander |
| author_facet | Falcke, Martin Moein, Mahsa Tilunaite, Agne Thul, Ruediger Skupin, Alexander |
| author_sort | Falcke, Martin |
| building | Nottingham Research Data Repository |
| collection | Online Access |
| description | The correspondence between mathematical structures and experimental systems is the basis of the generalizability of results found with specific systems, and is the basis of the predictive power of theoretical physics. While physicists have confidence in this correspondence, it is less recognized in cellular biophysics. On the one hand, the complex organization of cellular dynamics involving a plethora of interacting molecules and the basic observation of cell variability seem to question its possibility. The practical difficulties of deriving the equations describing cellular behaviour from first principles support these doubts. On the other hand, ignoring such a correspondence would severely limit the possibility of predictive quantitative theory in biophysics. Additionally, the existence of functional modules (like pathways) across cell types suggests also the existence of mathematical structures with comparable universality. Only a few cellular systems have been sufficiently investigated in a variety of cell types to follow up these basic questions. IP3 induced Ca2+ signalling is one of them, and the mathematical structure corresponding to it is subject of ongoing discussion. We review the system’s general properties observed in a variety of cell types. They are captured by a reaction diffusion system. We discuss the phase space structure of its local dynamics. The spiking regime corresponds to noisy excitability. Models focussing on different aspects can be derived starting from this phase space structure. We discuss how the initial assumptions on the set of stochastic variables and phase space structure shape the predictions of parameter dependencies of the mathematical models resulting from the derivation. |
| first_indexed | 2025-11-14T20:16:42Z |
| format | Article |
| id | nottingham-50410 |
| institution | University of Nottingham Malaysia Campus |
| institution_category | Local University |
| language | English English |
| last_indexed | 2025-11-14T20:16:42Z |
| publishDate | 2018 |
| publisher | AIP Publishing |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | nottingham-504102018-06-12T04:52:47Z https://eprints.nottingham.ac.uk/50410/ On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling Falcke, Martin Moein, Mahsa Tilunaite, Agne Thul, Ruediger Skupin, Alexander The correspondence between mathematical structures and experimental systems is the basis of the generalizability of results found with specific systems, and is the basis of the predictive power of theoretical physics. While physicists have confidence in this correspondence, it is less recognized in cellular biophysics. On the one hand, the complex organization of cellular dynamics involving a plethora of interacting molecules and the basic observation of cell variability seem to question its possibility. The practical difficulties of deriving the equations describing cellular behaviour from first principles support these doubts. On the other hand, ignoring such a correspondence would severely limit the possibility of predictive quantitative theory in biophysics. Additionally, the existence of functional modules (like pathways) across cell types suggests also the existence of mathematical structures with comparable universality. Only a few cellular systems have been sufficiently investigated in a variety of cell types to follow up these basic questions. IP3 induced Ca2+ signalling is one of them, and the mathematical structure corresponding to it is subject of ongoing discussion. We review the system’s general properties observed in a variety of cell types. They are captured by a reaction diffusion system. We discuss the phase space structure of its local dynamics. The spiking regime corresponds to noisy excitability. Models focussing on different aspects can be derived starting from this phase space structure. We discuss how the initial assumptions on the set of stochastic variables and phase space structure shape the predictions of parameter dependencies of the mathematical models resulting from the derivation. AIP Publishing 2018-04-13 Article PeerReviewed application/pdf en cc_by https://eprints.nottingham.ac.uk/50410/8/1.5021073.pdf application/pdf en https://eprints.nottingham.ac.uk/50410/1/Falcke_et_al_R.pdf Falcke, Martin, Moein, Mahsa, Tilunaite, Agne, Thul, Ruediger and Skupin, Alexander (2018) On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling. Chaos, 28 (4). 045115/1-045115/9. ISSN 1054-1500 https://aip.scitation.org/doi/10.1063/1.5021073 doi:10.1063/1.5021073 doi:10.1063/1.5021073 |
| spellingShingle | Falcke, Martin Moein, Mahsa Tilunaite, Agne Thul, Ruediger Skupin, Alexander On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title | On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title_full | On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title_fullStr | On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title_full_unstemmed | On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title_short | On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling |
| title_sort | on the phase space structure of ip3 induced ca2+ signalling and concepts for predictive modeling |
| url | https://eprints.nottingham.ac.uk/50410/ https://eprints.nottingham.ac.uk/50410/ https://eprints.nottingham.ac.uk/50410/ |