Cramer-Rao bound and absolute sensitivity in chemical reaction networks
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arXiv
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| Formato: | Preprint |
| Publicado: |
2024
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| _version_ | 1866913752101683200 |
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| author | Loutchko, Dimitri Sughiyama, Yuki Kobayashi, Tetsuya J. |
| author_facet | Loutchko, Dimitri Sughiyama, Yuki Kobayashi, Tetsuya J. |
| contents | Chemical reaction networks (CRN) comprise an important class of models to understand biological functions such as cellular information processing, the robustness and control of metabolic pathways, circadian rhythms, and many more. However, any CRN describing a certain function does not act in isolation but is a part of a much larger network and as such is constantly subject to external changes. In [Shinar, Alon, and Feinberg. "Sensitivity and robustness in chemical reaction networks." SIAM J App Math (2009): 977-998.], the responses of CRN to changes in the linear conserved quantities, called sensitivities, were studied in and the question of how to construct absolute, i.e., basis-independent, sensitivities was raised. In this article, by applying information geometric methods, such a construction is provided. The idea is to track how concentration changes in a particular chemical propagate to changes of all concentrations within a steady state. This is encoded in the matrix of absolute sensitivities. As the main technical tool, a multivariate Cramer-Rao bound for CRN is proven, which is based on the the analogy between quasi-thermostatic steady states and the exponential family of probability distributions. This leads to a linear algebraic characterization of the matrix of absolute sensitivities for quasi-thermostatic CRN. As an example, the core module of the IDHKP-IDH glyoxylate bypass regulation system is analyzed analytically and numerically by extensive random sampling of the concentration space. The experimentally known findings for the robustness of the IDH enzyme are confirmed and a hidden symmetry at the level of distributions is revealed, providing a blueprint for the analysis of the robustness properties of CRNs. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2401_06987 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | Cramer-Rao bound and absolute sensitivity in chemical reaction networks Loutchko, Dimitri Sughiyama, Yuki Kobayashi, Tetsuya J. Molecular Networks Information Theory Biological Physics Chemical Physics 80A30, 37C05, 37C25, 92C45, 53B12, 53B50, 62B11, 14M25 Chemical reaction networks (CRN) comprise an important class of models to understand biological functions such as cellular information processing, the robustness and control of metabolic pathways, circadian rhythms, and many more. However, any CRN describing a certain function does not act in isolation but is a part of a much larger network and as such is constantly subject to external changes. In [Shinar, Alon, and Feinberg. "Sensitivity and robustness in chemical reaction networks." SIAM J App Math (2009): 977-998.], the responses of CRN to changes in the linear conserved quantities, called sensitivities, were studied in and the question of how to construct absolute, i.e., basis-independent, sensitivities was raised. In this article, by applying information geometric methods, such a construction is provided. The idea is to track how concentration changes in a particular chemical propagate to changes of all concentrations within a steady state. This is encoded in the matrix of absolute sensitivities. As the main technical tool, a multivariate Cramer-Rao bound for CRN is proven, which is based on the the analogy between quasi-thermostatic steady states and the exponential family of probability distributions. This leads to a linear algebraic characterization of the matrix of absolute sensitivities for quasi-thermostatic CRN. As an example, the core module of the IDHKP-IDH glyoxylate bypass regulation system is analyzed analytically and numerically by extensive random sampling of the concentration space. The experimentally known findings for the robustness of the IDH enzyme are confirmed and a hidden symmetry at the level of distributions is revealed, providing a blueprint for the analysis of the robustness properties of CRNs. |
| title | Cramer-Rao bound and absolute sensitivity in chemical reaction networks |
| topic | Molecular Networks Information Theory Biological Physics Chemical Physics 80A30, 37C05, 37C25, 92C45, 53B12, 53B50, 62B11, 14M25 |
| url | https://arxiv.org/abs/2401.06987 |