Manuel Eduardo Hernández-García, Mariana Gómez-Schiavon, Jorge Velázquez-Castro
{"title":"p53 周期的外部波动","authors":"Manuel Eduardo Hernández-García, Mariana Gómez-Schiavon, Jorge Velázquez-Castro","doi":"arxiv-2408.12107","DOIUrl":null,"url":null,"abstract":"Fluctuations are inherent to biological systems, arising from the stochastic\nnature of molecular interactions, and influence various aspects of system\nbehavior, stability, and robustness. These fluctuations can be categorized as\nintrinsic, stemming from the system's inherent structure and dynamics, and\nextrinsic, arising from external factors, such as temperature variations.\nUnderstanding the interplay between these fluctuations is crucial for obtaining\na comprehensive understanding of biological phenomena. However, studying these\neffects poses significant computational challenges. In this study, we used an\nunderexplored methodology to analyze the effect of extrinsic fluctuations in\nstochastic systems using ordinary differential equations instead of solving the\nMaster Equation with stochastic parameters. By incorporating temperature\nfluctuations into reaction rates, we explored the impact of extrinsic factors\non system dynamics. We constructed a master equation and calculated the\nequations for the dynamics of the first two moments, offering computational\nefficiency compared with directly solving the chemical master equation. We\napplied this approach to analyze a biological oscillator, focusing on the p53\nmodel and its response to temperature-induced extrinsic fluctuations. Our\nfindings underscore the impact of extrinsic fluctuations on the nature of\noscillations in biological systems, with alterations in oscillatory behavior\ndepending on the characteristics of extrinsic fluctuations. We observed an\nincreased oscillation amplitude and frequency of the p53 concentration cycle.\nThis study provides valuable insights into the effects of extrinsic\nfluctuations on biological oscillations and highlights the importance of\nconsidering them in more complex systems to prevent unwanted scenarios related\nto health issues.","PeriodicalId":501325,"journal":{"name":"arXiv - QuanBio - Molecular Networks","volume":"6 1","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2024-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Extrinsic Fluctuations in the p53 Cycle\",\"authors\":\"Manuel Eduardo Hernández-García, Mariana Gómez-Schiavon, Jorge Velázquez-Castro\",\"doi\":\"arxiv-2408.12107\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Fluctuations are inherent to biological systems, arising from the stochastic\\nnature of molecular interactions, and influence various aspects of system\\nbehavior, stability, and robustness. These fluctuations can be categorized as\\nintrinsic, stemming from the system's inherent structure and dynamics, and\\nextrinsic, arising from external factors, such as temperature variations.\\nUnderstanding the interplay between these fluctuations is crucial for obtaining\\na comprehensive understanding of biological phenomena. However, studying these\\neffects poses significant computational challenges. In this study, we used an\\nunderexplored methodology to analyze the effect of extrinsic fluctuations in\\nstochastic systems using ordinary differential equations instead of solving the\\nMaster Equation with stochastic parameters. By incorporating temperature\\nfluctuations into reaction rates, we explored the impact of extrinsic factors\\non system dynamics. We constructed a master equation and calculated the\\nequations for the dynamics of the first two moments, offering computational\\nefficiency compared with directly solving the chemical master equation. We\\napplied this approach to analyze a biological oscillator, focusing on the p53\\nmodel and its response to temperature-induced extrinsic fluctuations. Our\\nfindings underscore the impact of extrinsic fluctuations on the nature of\\noscillations in biological systems, with alterations in oscillatory behavior\\ndepending on the characteristics of extrinsic fluctuations. We observed an\\nincreased oscillation amplitude and frequency of the p53 concentration cycle.\\nThis study provides valuable insights into the effects of extrinsic\\nfluctuations on biological oscillations and highlights the importance of\\nconsidering them in more complex systems to prevent unwanted scenarios related\\nto health issues.\",\"PeriodicalId\":501325,\"journal\":{\"name\":\"arXiv - QuanBio - Molecular Networks\",\"volume\":\"6 1\",\"pages\":\"\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2024-08-22\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"arXiv - QuanBio - Molecular Networks\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/arxiv-2408.12107\",\"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 - Molecular Networks","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/arxiv-2408.12107","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
Fluctuations are inherent to biological systems, arising from the stochastic
nature of molecular interactions, and influence various aspects of system
behavior, stability, and robustness. These fluctuations can be categorized as
intrinsic, stemming from the system's inherent structure and dynamics, and
extrinsic, arising from external factors, such as temperature variations.
Understanding the interplay between these fluctuations is crucial for obtaining
a comprehensive understanding of biological phenomena. However, studying these
effects poses significant computational challenges. In this study, we used an
underexplored methodology to analyze the effect of extrinsic fluctuations in
stochastic systems using ordinary differential equations instead of solving the
Master Equation with stochastic parameters. By incorporating temperature
fluctuations into reaction rates, we explored the impact of extrinsic factors
on system dynamics. We constructed a master equation and calculated the
equations for the dynamics of the first two moments, offering computational
efficiency compared with directly solving the chemical master equation. We
applied this approach to analyze a biological oscillator, focusing on the p53
model and its response to temperature-induced extrinsic fluctuations. Our
findings underscore the impact of extrinsic fluctuations on the nature of
oscillations in biological systems, with alterations in oscillatory behavior
depending on the characteristics of extrinsic fluctuations. We observed an
increased oscillation amplitude and frequency of the p53 concentration cycle.
This study provides valuable insights into the effects of extrinsic
fluctuations on biological oscillations and highlights the importance of
considering them in more complex systems to prevent unwanted scenarios related
to health issues.