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"BeatBox - HPC Environment for Biophysically and Anatomically Realistic Cardiac Simulations"

Investigators

EP/I029664/1:
Vadim N. Biktashev, University of Exeter (principal investigator), Irina V. Biktasheva, University of Liverpool (coinvestigator).
EP/I029826/1:
Henggui Zhang, Manchester University (principal investigator).
EP/I030158/1:
Mark Bull, University of Edinburgh (principal investigator).

Staff

Sanjay Kharche, University of Exeter
Adrian Jackson, University of Edinburgh
Mario Antonioletti, University of Edinburgh

Dates

Start
September 1, 2011
End
August 31, 2013

Results

Software
see BeatBox software home page
Publications
  1. V.N. Biktashev, I.V. Biktasheva and N.A. Sarvazyan, "Evolution of spiral and scroll waves of excitation in a mathematical model of ischaemic border zone", PLoS ONE, 6(9):e24388, 2011
  2. M. A. Colman, O. V. Aslanidi, J. Stott, A. V. Holden, H. Zhang "Correlation between P-wave morphology and origin of atrial focal tachycardia - insights from realistic models of the human atria and torso", IEEE Trans Biomed Eng. 58(10):2952-5, 2011
  3. I. Adeniran, M. J. McPate, H. J. Witchel, J. C. Hancox, H. Zhang, "Increased vulnerability of human ventricle to re-entrant excitation in hERG-linked variant 1 short QT syndrome", PLoS Comput. Biol. 7(12):e1002313, 2011
  4. O. V. Aslanidi, M. A. Colman, J. Stott, H. Dobrzynski, M. R. Boyett, A. V. Holden, H. Zhang, "3D virtual human atria: A computational platform for studying clinical atrial fibrillation", Prog. Biophys. Mol. Biol. 107(1):156-68, 2011
  5. H. Dierckx, H. Verschelde, Ö. Selsil and V. N. Biktashev, "Buckling of scroll waves", Phys. Rev. Lett., 109(17):174102, 2012
  6. H. Zhang, T. Butters, I. Adeniran, J. Higham, A.V. Holden, M.R. Boyett, J.C. Hancox, "Modeling the chronotropic effect of isoprenaline on rabbit sinoatrial node", Front Physiol. 3: 241, 2012
  7. Q. Li, S. C. O'Neill, T. Tao, Y. Li, D. Eisner, H. Zhang, "Mechanisms by which cytoplasmic calcium wave propagation and alternans are generated in cardiac atrial myocytes lacking T-tubules - insights from a simulation study", Biophys J. 102(7):1471-82, 2012
  8. J. Zhao, T. D. Butters, H. Zhang, A. J. Pullan, I. J. LeGrice, G. B. Sands, B. H. Smaill, "An image-based model of atrial muscular architecture: effects of structural anisotropy on electrical activation", Circ. Arrhythm. Electrophysiol. 5(2):361-70, 2012
  9. S. R. Kharche, T. Stary, M. A. Colman, I. V. Biktasheva, A. J. Workman, A. C.Rankin, A. V. Holden and H. Zhang, "Computer Simulation of the Anti-arrhythmic Effects of Chronic β-blocker Treatment on Human Atrial Electrophysiology", EUROPACE 16(10):1524-1533, 2014
  10. I. V. Biktasheva, H. Dierckx and V. N. Biktashev, "Drift of scroll waves in thin layers caused by thickness features: asymptotic theory and numerical simulations", Phys. Rev. Lett. 114(6):068302, 2015
  11. T. Stary and V. N. Biktashev, "Exponential integrators for a Markov chain model of the fast sodium channel of cardiomyocytes", IEEE Trans. Biomed. Eng. 62(4):1070-1076, 2015
  12. S. Kharche, I. V. Biktasheva, G. Seeman, H. Zhang and V. N. Biktashev, "A Computer Simulation Study of Anatomy Induced Drift of Spiral Waves in the Human Atrium", BioMed Research International 2015:731386, 2015
  13. B. Bezekci, I. Idris, R. D. Simitev and V. N. Biktashev, "Semi-analytical approach to criteria for ignition of excitation waves", Phys. Rev. E, 92:042917, 2015
Presentations
  1. O. V. Aslanidi, T. D. Butters, C. X. Ren, G. Ryecroft, H. Zhang, "Electrophysiological models for the heterogeneous canine atria: computational platform for studying rapid atrial arrhythmias", Conf Proc IEEE Eng Med Biol Soc. 2011:1693-6, 2011
  2. V. N. Biktashev, D. Barkley, I. V. Biktasheva, G. V. Bordyugov, H. Dierckx, A. J. Foulkes, S. W. Morgan, G. Plank, N. A. Sarvazyan, O. Selsil and H. Verschelde, "Asymptotic dynamics and control of spiral and scroll waves", International Conference "Instabilities and Control of Excitable Networks: From macro- to nano-systems", May 25-30, 2012, Dolgoprudny, Russia
  3. I. Biktasheva, V. N. Biktashev, N. Sarvazyan, "Evolution of Spiral and Scroll Waves of Excitation in a Mathematical Model of Ischaemic Border Zone", SIAM Conference on Nonlinear Waves and Coherent Structures, June 13-16, 2012, Seattle, Washington, USA
  4. S. Kharche, I. V. Biktasheva, V. N. Biktashev, "Beatbox: A novel multi-function cardiac simulation environment", Physiology 2012, July 2-5, 2012, Edinburgh, UK; Proc. Physiol. Soc. 27, PC26
  5. S. Kharche, T. Stary, G. Callisesi, A. Bracci, S. Severi "Correlating serum potassium levels to ECG: A simulation study", Physiology 2012, July 2-5, 2012, Edinburgh, UK; Proc. Physiol. Soc. 27, PC27
  6. S. Kharche, I. Biktasheva, G. Seemann, H.G. Zhang, V. Biktashev, "Cardioversion Using Feedback Stimuli in Human Atria", CMMB meeting "Multiscale Modelling in Medicine and Biology", September 3-5, 2012, Nottinham, UK
  7. I.V. Biktasheva, N A. Sarvazyan, and V.N. Biktashev, "Dynamics of Scroll Waves of Excitation in a Mathematical Model of Ischaemic Border Zone", 39th Annual Conference on Computing in Cardiology, September 9-12, 2012, Krakow, Poland; Computing in Cardiology, 39:445-448, 2012.
  8. S. Kharche, I. Biktasheva, G. Seemann, H. Zhang, and V. Biktashev, "Cardioversion Using Feedback Stimuli in Human Atria", 39th Annual Conference on Computing in Cardiology, , September 9-12, 2012, Krakow, Poland; Computing in Cardiology 39:133-136, 2012.
  9. S. Kharche, G. Callisesi, T. Stary, A. Bracci and S. Severi, "Simulating the Effects of Serum Potassium on the ECG", 39th Annual Conference on Computing in Cardiology, , September 9-12, 2012, Krakow, Poland; Computing in Cardiology 2012; 39:225-228.
  10. S. Kharche, A. Jackson, I. V. Biktasheva and V. N. Biktashev, "Simulation of Low Energy Defibrillation Using a Novel Cardiac Simulation Environment, Beatbox", Digital Research 2012, September 10-12, Oxford, UK.
  11. S. Kharche, I. Biktasheva, G. Seemann, H. Zhang, V. Biktashev "Low Energy Cardioversion Using Feedback Stimuli in Human Atria", Multiscale Modelling in Medicine and Biology: 3-5 September 2012, Centre for Mathematical Medicine and Biology, University of Nottingham.
  12. S. R. Kharche, T. Stary, I. V. Biktasheva, H. Zhang and V. N. Biktashev, "The role of fibre orientation in cardioversion of chronic atrial fibrillation: a simulation study", Proc 37th IUPS (2013)
  13. S. R. Kharche, T. Stary, I. V. Biktasheva, H. Zhang and V. Biktashev, "Simulating cell apoptosis induced sinus node dysfunction", Proc 37th IUPS (2013)
  14. S. R. Kharche, T. Stary, I. V. Biktasheva, A. J. Workman, A. C. Rankin, A. V. Holden and H. Zhang, "Effects of human atrial ionic remodelling by β-blocker therapy on mechanisms of atrial fibrillation: a computer simulation" Journal of Electrocardiology, Volume 46, Issue 4 , Page e6, July 2013
  15. S. R. Kharche, T. Stary, I. V. Biktasheva, H. Zhang, V. N. Biktashev, "Computer simulation of the role of fibre orientation in cardioversion of chronic atrial fibrillation" Journal of Electrocardiology, Volume 46, Issue 4 , Pages e6-e7, July 2013
  16. J. C. Hancox, S. Kharche, A. El Harchi, J. Stott, P. Law, H. Zhang, "In silico investigation of a KCNQ1 mutation associated with familial atrial fibrillation" Journal of Electrocardiology Volume 47, Issue 2, March–April 2014, Pages 158–165
  17. T. Stary and V. N. Biktashev, "Evaluating exponential integrators for Markov chain ion channel models", 42nd Annual Conference on Computing in Cardiology, September 6-9, 2015, Nice, France; Computing in Cardiology 42:885-888, 2015
  18. V. Biktashev, T. Stary "Evaluating exponential integrators for Markov chain ion channel models", XXXV Dynamics Days Europe, University of Exeter, UK, Sept 2015
Workshop
for BeatBox users took place in Manchester on June 24-25, 2013. See the Workshop materials.
Scalability studies
The presentation at the users' workshop (PDF, 1.2M)
A more recent study

Vadim Biktashev
Last modified: Tue Feb 6 12:31:10 GMT 2024