TY - JOUR
T1 - Qualitative, Semi-quantitative, and Quantitative Simulation of the Osmoregulation System in Yeast
AU - Pang, Wei
AU - Coghill, George M.
N1 - WP and GMC are supported by the CRISP project (Combinatorial Responses In Stress Pathways) funded by the BBSRC (BB/F00513X/1) under the Systems Approaches to Biological Research (SABR) Initiative. WP is also supported by the Researcher International Networking Grant (RING) grant from the British Council.
PY - 2015/5
Y1 - 2015/5
N2 - 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.
AB - 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.
KW - osmotic stress response
KW - Semi-quantitative simulation
KW - qualitative simulation
U2 - 10.1016/j.biosystems.2015.04.003
DO - 10.1016/j.biosystems.2015.04.003
M3 - Article
VL - 131
SP - 40
EP - 50
JO - BioSystems
JF - BioSystems
SN - 0303-2647
ER -
