Oscillations in a point models of the intracellular Ca2+ concentration

Oscillations in the intracellular calcium (Ca2+) concentration form one of the main pathways by which cells translate external stimuli into physiological responses (Thul et al. 2008; Dupont et al. 2011; Parekh 2011). The mechanisms that underlie the generation of Ca2+ oscillations are still actively...

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Main Author:	Thul, Ruediger
Format:	Article
Language:	English
Published:	Cold Spring Harbor Laboratory Press 2014
Online Access:	http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/1/Oscillations%20in%20a%20point%20models%20of%20the%20intracellular%20Ca2-Thul.pdf

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spelling	nottingham-341072017-10-12T20:49:40Z http://eprints.nottingham.ac.uk/34107/ Oscillations in a point models of the intracellular Ca2+ concentration Thul, Ruediger Oscillations in the intracellular calcium (Ca2+) concentration form one of the main pathways by which cells translate external stimuli into physiological responses (Thul et al. 2008; Dupont et al. 2011; Parekh 2011). The mechanisms that underlie the generation of Ca2+ oscillations are still actively debated in the modeling community, but there is growing evidence that Ca2+ oscillations result from the spatio-temporal summation of subcellular Ca2+ release events (Thurley et al. 2012). Nevertheless, one prominent modeling approach to intracellular Ca2+ oscillations is the use of ordinary differential equations (ODEs), which treat the intracellular Ca2+ concentration as spatially homogenous. Although ODEs cannot account for the interaction of Ca2+ microdomains to form cell-wide Ca2+ patterns, modelers still choose ODEs since (a) the study of ODEs is computationally cheap, and a large body of techniques is available to investigate ODEs in great detail, or (b) there might not be sufficient experimental data to develop a spatially extended model. Irrespective of the reason, analyzing ODEs is a key instrument in the toolbox of modelers. In this protocol, we look at a wellknown model for Ca2+ oscillations (De Young and Keizer 1992; Li and Rinzel 1994). The main emphasis of this protocol is the use of the open source software package XPPaut to numerically study ODEs (Ermentrout 2002). The knowledge gained here can be directly transferred to other ODE systems and therefore may serve as a template for future studies. For a general background on analysing ODEs in the context of Mathematical Cell Physiology, I refer the reader to (Keener and Sneyd 2001; Fall et al. 2002; Britton 2002; Murray 2013). Cold Spring Harbor Laboratory Press 2014-05-15 Article PeerReviewed application/pdf en http://eprints.nottingham.ac.uk/34107/1/Oscillations%20in%20a%20point%20models%20of%20the%20intracellular%20Ca2-Thul.pdf Thul, Ruediger (2014) Oscillations in a point models of the intracellular Ca2+ concentration. Cold Spring Harbor Protocols . ISSN 1559-6095 http://cshprotocols.cshlp.org/content/2014/5/pdb.prot073221 doi:10.1101/pdb.prot073221 doi:10.1101/pdb.prot073221
repository_type	Digital Repository
institution_category	Local University
institution	University of Nottingham Malaysia Campus
building	Nottingham Research Data Repository
collection	Online Access
language	English
description	Oscillations in the intracellular calcium (Ca2+) concentration form one of the main pathways by which cells translate external stimuli into physiological responses (Thul et al. 2008; Dupont et al. 2011; Parekh 2011). The mechanisms that underlie the generation of Ca2+ oscillations are still actively debated in the modeling community, but there is growing evidence that Ca2+ oscillations result from the spatio-temporal summation of subcellular Ca2+ release events (Thurley et al. 2012). Nevertheless, one prominent modeling approach to intracellular Ca2+ oscillations is the use of ordinary differential equations (ODEs), which treat the intracellular Ca2+ concentration as spatially homogenous. Although ODEs cannot account for the interaction of Ca2+ microdomains to form cell-wide Ca2+ patterns, modelers still choose ODEs since (a) the study of ODEs is computationally cheap, and a large body of techniques is available to investigate ODEs in great detail, or (b) there might not be sufficient experimental data to develop a spatially extended model. Irrespective of the reason, analyzing ODEs is a key instrument in the toolbox of modelers. In this protocol, we look at a wellknown model for Ca2+ oscillations (De Young and Keizer 1992; Li and Rinzel 1994). The main emphasis of this protocol is the use of the open source software package XPPaut to numerically study ODEs (Ermentrout 2002). The knowledge gained here can be directly transferred to other ODE systems and therefore may serve as a template for future studies. For a general background on analysing ODEs in the context of Mathematical Cell Physiology, I refer the reader to (Keener and Sneyd 2001; Fall et al. 2002; Britton 2002; Murray 2013).
format	Article
author	Thul, Ruediger
spellingShingle	Thul, Ruediger Oscillations in a point models of the intracellular Ca2+ concentration
author_facet	Thul, Ruediger
author_sort	Thul, Ruediger
title	Oscillations in a point models of the intracellular Ca2+ concentration
title_short	Oscillations in a point models of the intracellular Ca2+ concentration
title_full	Oscillations in a point models of the intracellular Ca2+ concentration
title_fullStr	Oscillations in a point models of the intracellular Ca2+ concentration
title_full_unstemmed	Oscillations in a point models of the intracellular Ca2+ concentration
title_sort	oscillations in a point models of the intracellular ca2+ concentration
publisher	Cold Spring Harbor Laboratory Press
publishDate	2014
url	http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/ http://eprints.nottingham.ac.uk/34107/1/Oscillations%20in%20a%20point%20models%20of%20the%20intracellular%20Ca2-Thul.pdf
first_indexed	2018-09-06T12:25:54Z
last_indexed	2018-09-06T12:25:54Z
_version_	1610860991595151360

Oscillations in a point models of the intracellular Ca2+ concentration

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