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Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast
In this paper we demonstrate how Morven, a computational framework which can perform qualitative, semi-quantitative, and quantitative simulation of dynamical systems using the same model formalism, is applied to study the osmotic stress response pathway in yeast. First the Morven framework itself is...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier Science Ireland
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4441110/ https://www.ncbi.nlm.nih.gov/pubmed/25864377 http://dx.doi.org/10.1016/j.biosystems.2015.04.003 |
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author | Pang, Wei Coghill, George M. |
author_facet | Pang, Wei Coghill, George M. |
author_sort | Pang, Wei |
collection | PubMed |
description | In this paper we demonstrate how Morven, a computational framework which can perform qualitative, semi-quantitative, and quantitative simulation of dynamical systems using the same model formalism, is applied to study the osmotic stress response pathway in yeast. First the Morven framework itself is briefly introduced in terms of the model formalism employed and output format. We then built a qualitative model for the biophysical process of the osmoregulation in yeast, and a global qualitative-level picture was obtained through qualitative simulation of this model. Furthermore, we constructed a Morven model based on existing quantitative model of the osmoregulation system. This model was then simulated qualitatively, semi-quantitatively, and quantitatively. The obtained simulation results are presented with an analysis. Finally the future development of the Morven framework for modelling the dynamic biological systems is discussed. |
format | Online Article Text |
id | pubmed-4441110 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Elsevier Science Ireland |
record_format | MEDLINE/PubMed |
spelling | pubmed-44411102015-05-23 Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast Pang, Wei Coghill, George M. Biosystems Article In this paper we demonstrate how Morven, a computational framework which can perform qualitative, semi-quantitative, and quantitative simulation of dynamical systems using the same model formalism, is applied to study the osmotic stress response pathway in yeast. First the Morven framework itself is briefly introduced in terms of the model formalism employed and output format. We then built a qualitative model for the biophysical process of the osmoregulation in yeast, and a global qualitative-level picture was obtained through qualitative simulation of this model. Furthermore, we constructed a Morven model based on existing quantitative model of the osmoregulation system. This model was then simulated qualitatively, semi-quantitatively, and quantitatively. The obtained simulation results are presented with an analysis. Finally the future development of the Morven framework for modelling the dynamic biological systems is discussed. Elsevier Science Ireland 2015-05 /pmc/articles/PMC4441110/ /pubmed/25864377 http://dx.doi.org/10.1016/j.biosystems.2015.04.003 Text en © 2015 The Authors http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Pang, Wei Coghill, George M. Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title | Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title_full | Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title_fullStr | Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title_full_unstemmed | Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title_short | Qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
title_sort | qualitative, semi-quantitative, and quantitative simulation of the osmoregulation system in yeast |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4441110/ https://www.ncbi.nlm.nih.gov/pubmed/25864377 http://dx.doi.org/10.1016/j.biosystems.2015.04.003 |
work_keys_str_mv | AT pangwei qualitativesemiquantitativeandquantitativesimulationoftheosmoregulationsysteminyeast AT coghillgeorgem qualitativesemiquantitativeandquantitativesimulationoftheosmoregulationsysteminyeast |