Combination of "generalized Trotter operator splitting" and "quadratic adaptive algorithm" method for tradeoff among speedup, stability, and accuracy in the Markov chain model of sodium ion channels in the ventricular cell model.

Medical & Biological Engineering & Computing
Xing-Ji ChenMin-Hung Chen

Abstract

The fast hybrid operator splitting (HOS) and stable uniformization (UNI) methods have been proposed to save computation cost and enhance stability for Markov chain model in cardiac cell simulations. Moreover, Chen-Chen-Luo's quadratic adaptive algorithm (CCL) combined with HOS or UNI was used to improve the tradeoff between speedup and stability, but without considering accuracy. To compromise among stability, acceleration, and accuracy, we propose a generalized Trotter operator splitting (GTOS) method combined with CCL independent of the asymptotic property of a particular ion-channel model. Due to the accuracy underestimation of the mixed root mean square error (MRMSE) method, threshold root mean square error (TRMSE) is proposed to evaluate computation accuracy. With the fixed time-step RK4 as a reference, the second-order GTOS combined with CCL (30.8-fold speedup) for the wild-type Markov chain model with nine states (WT-9 model) or (7.4-fold) for the wild-type Markov chain model with eight states (WT-8 model) is faster than UNI combined with CCL (15.6-fold) for WT-9 model or (1.2-fold) for WT-8 model, separately. Besides, the second-order GTOS combined with CCL has 3.81% TRMSE for WT-9 model or 4.32% TRMSE for WT-8 model mo...Continue Reading

References

Jul 20, 2006·Quarterly Reviews of Biophysics·Yoram Rudy, Jonathan R Silva
Apr 29, 2008·IEEE Transactions on Bio-medical Engineering·Raymond J Spiteri, Ryan C Dean
Feb 25, 2009·IEEE Transactions on Bio-medical Engineering·Joakim SundnesAslak Tveito
May 6, 2009·Philosophical Transactions. Series A, Mathematical, Physical, and Engineering Sciences·Martin Fink, Denis Noble
Jun 25, 2009·Proceedings of the National Academy of Sciences of the United States of America·Jonathan R SilvaYoram Rudy
Jun 29, 2010·Annals of Biomedical Engineering·Raymond J Spiteri, Ryan C Dean
Jun 28, 2012·IEEE Transactions on Bio-medical Engineering·Megan E MarshRaymond J Spiteri
Jan 1, 2014·Computers in Biology and Medicine·V M Garcia-MollaA M Climent
Oct 9, 2014·IEEE Transactions on Bio-medical Engineering·Johnny Moreira GomesRodrigo Weber Dos Santos
Nov 7, 2014·IEEE Transactions on Bio-medical Engineering·Tomas Stary, Vadim Biktashev
May 1, 2015·Biomedical Engineering Online·Alejandro Lopez-PerezJose M Ferrero
Feb 18, 2016·Annals of Biomedical Engineering·Colleen E ClancyDavid M Eckmann
Apr 10, 2016·Journal of Theoretical Biology·Beatriz Carbonell-PascualJose M Ferrero
Sep 18, 2016·Computers in Biology and Medicine·Min-Hung ChenChing-Hsing Luo
Feb 19, 2017·Circulation. Arrhythmia and Electrophysiology·Amara Greer-ShortSeth H Weinberg
Aug 25, 2017·Channels·Kathryn E MangoldJonathan R Silva
Mar 3, 2018·Frontiers in Physiology·Pras Pathmanathan, Richard A Gray
Oct 27, 2018·Nature Reviews. Cardiology·Steven A NiedererNatalia A Trayanova
Jan 15, 2019·The Journal of Membrane Biology·Tesfaye Negash Asfaw, Vladimir E Bondarenko
Jul 30, 2019·Journal of Medical Engineering & Technology·Alireza FallahiAlireza Kokabi

❮ Previous
Next ❯

Methods Mentioned

BETA
four hybrid

Software Mentioned

GTOS
Visual Studio
UNI
HOS

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.