Literature DB >> 19217846

Parameter sensitivity analysis in electrophysiological models using multivariable regression.

Eric A Sobie1.   

Abstract

Computational models of electrical activity and calcium signaling in cardiac myocytes are important tools for understanding physiology. The sensitivity of these models to changes in parameters is often not well-understood, however, because parameter evaluation can be a time-consuming, tedious process. I demonstrate here what I believe is a novel method for rapidly determining how changes in parameters affect outputs. In three models of the ventricular action potential, parameters were randomized, repeated simulations were run, important outputs were calculated, and multivariable regression was performed on the collected results. Random parameters included both maximal rates of ion transport and gating variable characteristics. The procedure generated simplified, empirical models that predicted outputs resulting from new sets of input parameters. The linear regression models were quite accurate, despite nonlinearities in the mechanistic models. Moreover, the regression coefficients, which represent parameter sensitivities, were robust, even when parameters were varied over a wide range. Most importantly, a side-by-side comparison of two similar models identified fundamental differences in model behavior, and revealed model predictions that were both consistent with, and inconsistent with, experimental data. This new method therefore shows promise as a tool for the characterization and assessment of computational models. The general strategy may also suggest methods for integrating traditional quantitative models with large-scale data sets obtained using high-throughput technologies.

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Year:  2009        PMID: 19217846      PMCID: PMC2717232          DOI: 10.1016/j.bpj.2008.10.056

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  34 in total

Review 1.  Integrative analysis of calcium cycling in cardiac muscle.

Authors:  D A Eisner; H S Choi; M E Díaz; S C O'Neill; A W Trafford
Journal:  Circ Res       Date:  2000-12-08       Impact factor: 17.367

2.  Ionic mechanism of electrical alternans.

Authors:  Jeffrey J Fox; Jennifer L McHarg; Robert F Gilmour
Journal:  Am J Physiol Heart Circ Physiol       Date:  2002-02       Impact factor: 4.733

3.  Control analysis for autonomously oscillating biochemical networks.

Authors:  Karin A Reijenga; Hans V Westerhoff; Boris N Kholodenko; Jacky L Snoep
Journal:  Biophys J       Date:  2002-01       Impact factor: 4.033

4.  A computationally efficient electrophysiological model of human ventricular cells.

Authors:  O Bernus; R Wilders; C W Zemlin; H Verschelde; A V Panfilov
Journal:  Am J Physiol Heart Circ Physiol       Date:  2002-06       Impact factor: 4.733

5.  Sensitivity analysis of stoichiometric networks: an extension of metabolic control analysis to non-steady state trajectories.

Authors:  Brian P Ingalls; Herbert M Sauro
Journal:  J Theor Biol       Date:  2003-05-07       Impact factor: 2.691

6.  Modulation of CICR has no maintained effect on systolic Ca2+: simultaneous measurements of sarcoplasmic reticulum and sarcolemmal Ca2+ fluxes in rat ventricular myocytes.

Authors:  A W Trafford; M E Díaz; G C Sibbring; D A Eisner
Journal:  J Physiol       Date:  2000-01-15       Impact factor: 5.182

7.  Mathematical model of the neonatal mouse ventricular action potential.

Authors:  Linda J Wang; Eric A Sobie
Journal:  Am J Physiol Heart Circ Physiol       Date:  2008-04-11       Impact factor: 4.733

8.  A comprehensive two-hybrid analysis to explore the yeast protein interactome.

Authors:  T Ito; T Chiba; R Ozawa; M Yoshida; M Hattori; Y Sakaki
Journal:  Proc Natl Acad Sci U S A       Date:  2001-03-13       Impact factor: 11.205

9.  Interaction of different potassium channels in cardiac repolarization in dog ventricular preparations: role of repolarization reserve.

Authors:  Péter Biliczki; László Virág; Norbert Iost; Julius Gy Papp; András Varró
Journal:  Br J Pharmacol       Date:  2002-10       Impact factor: 8.739

10.  Probing the contribution of IKs to canine ventricular repolarization: key role for beta-adrenergic receptor stimulation.

Authors:  Paul G A Volders; Milan Stengl; Jurren M van Opstal; Uwe Gerlach; Roel L H M G Spätjens; Jet D M Beekman; Karin R Sipido; Marc A Vos
Journal:  Circulation       Date:  2003-05-19       Impact factor: 29.690

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  107 in total

1.  Multiple models to capture the variability in biological neurons and networks.

Authors:  Eve Marder; Adam L Taylor
Journal:  Nat Neurosci       Date:  2011-02       Impact factor: 24.884

Review 2.  Exploiting mathematical models to illuminate electrophysiological variability between individuals.

Authors:  Amrita X Sarkar; David J Christini; Eric A Sobie
Journal:  J Physiol       Date:  2012-04-10       Impact factor: 5.182

3.  Diverse levels of an inwardly rectifying potassium conductance generate heterogeneous neuronal behavior in a population of dorsal cochlear nucleus pyramidal neurons.

Authors:  Ricardo M Leao; Shuang Li; Brent Doiron; Thanos Tzounopoulos
Journal:  J Neurophysiol       Date:  2012-02-29       Impact factor: 2.714

4.  Predominant contribution of L-type Cav1.2 channel stimulation to impaired intracellular calcium and cerebral artery vasoconstriction in diabetic hyperglycemia.

Authors:  Stefano Morotti; Madeline Nieves-Cintrón; Matthew A Nystoriak; Manuel F Navedo; Eleonora Grandi
Journal:  Channels (Austin)       Date:  2017-02-10       Impact factor: 2.581

5.  Cell types, network homeostasis, and pathological compensation from a biologically plausible ion channel expression model.

Authors:  Timothy O'Leary; Alex H Williams; Alessio Franci; Eve Marder
Journal:  Neuron       Date:  2014-05-21       Impact factor: 17.173

Review 6.  Variability, compensation, and modulation in neurons and circuits.

Authors:  Eve Marder
Journal:  Proc Natl Acad Sci U S A       Date:  2011-03-07       Impact factor: 11.205

Review 7.  Neuronal homeostasis: time for a change?

Authors:  Timothy O'Leary; David J A Wyllie
Journal:  J Physiol       Date:  2011-08-08       Impact factor: 5.182

8.  Robustness portraits of diverse biological networks conserved despite order-of-magnitude parameter uncertainty.

Authors:  Anthony R Soltis; Jeffrey J Saucerman
Journal:  Bioinformatics       Date:  2011-08-31       Impact factor: 6.937

9.  An introduction to MATLAB.

Authors:  Eric A Sobie
Journal:  Sci Signal       Date:  2011-09-13       Impact factor: 8.192

10.  Slow Delayed Rectifier Current Protects Ventricular Myocytes From Arrhythmic Dynamics Across Multiple Species: A Computational Study.

Authors:  Meera Varshneya; Ryan A Devenyi; Eric A Sobie
Journal:  Circ Arrhythm Electrophysiol       Date:  2018-10
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