BeatBox - HPC Environment for Biophysically and Anatomically Realistic Cardiac Simulations
Lead Research Organisation:
University of Edinburgh
Department Name: Edinburgh Parallel Computing Centre
Abstract
Abstracts are not currently available in GtR for all funded research. This is normally because the abstract was not required at the time of proposal submission, but may be because it included sensitive information such as personal details.
Organisations
People |
ORCID iD |
| Mark Bull (Principal Investigator) |
Publications
Adeniran I
(2011)
Increased vulnerability of human ventricle to re-entrant excitation in hERG-linked variant 1 short QT syndrome.
in PLoS computational biology
Aslanidi OV
(2011)
3D virtual human atria: A computational platform for studying clinical atrial fibrillation.
in Progress in biophysics and molecular biology
Biktashev VN
(2011)
Evolution of spiral and scroll waves of excitation in a mathematical model of ischaemic border zone.
in PloS one
Zhao J
(2012)
An image-based model of atrial muscular architecture: effects of structural anisotropy on electrical activation.
in Circulation. Arrhythmia and electrophysiology
Dierckx H
(2012)
Buckling of scroll waves.
in Physical review letters
Zhang H
(2012)
Modeling the chronotropic effect of isoprenaline on rabbit sinoatrial node.
in Frontiers in physiology
Sanjay Karche (Author)
(2012)
Simulation of Low Energy Defibrillation Using a Novel Cardiac Simulation Environment, Beatbox
Kharche S
(2013)
Simulating cell apoptosis induced sinus node dysfunction.
in Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
Kharche SR
(2013)
Simulating the role of anisotropy in human atrial cardioversion.
in Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual International Conference
| Description | Beatbox has been transferred from an in-house tool into a publicly available software distributed freely under GNU license, with auto-configuration infrastructure to be easily adaptable for new architecture, detailed user manual, automatic tests, and example scripts illustrating its use. - New technical features have been incorporated into the software: new solvers (multigrid elliptic solver for the bidomain model, alternating-direction timestepper for the diffusion); several new local kinetics/cardiac excitation kinetics models, both from CELLML and implemented from scratch or based on author code; examples of new anatomical models (human atrium, rabbit heart), including those that originate from MRI datasets, and new output and postprocessing facilities. - A workshop for the current and prospective users of Beatbox has been held, with presentations explaining principles and software solutions befhind it, as well as hands-in tutorials. - The software has been used in ongoing research which resulted in a number of journal publications and conference presentations. Some of the research results would be difficult or impossible to obtain with other existing software, for instance, arrythmogenic effect of nontrivial spatio-temporal changes of cardiac tissue properties (reperfusion arrhythmias) and complex behaviour of scroll waves in realistic atrial geomery subject to feedback-controlled low-voltage stimulation. |
| Exploitation Route | The software is usable by pharmaceutical and biomedical industries, say for "in silico" testing of new drugs or ICDs. It is also usable for education purposes, say by students of electrophysiology, both within and outside academia. Finally, some of the programming solutions are usable in software technology. The software is distributed freely under GNU license through author's website. The research results are disseminated in the usual way, through open publications, conference presentations and personal contacts of the authors. |
| Sectors | Digital/Communication/Information Technologies (including Software),Education,Pharmaceuticals and Medical Biotechnology |
| URL | http://empslocal.ex.ac.uk/people/staff/vnb262/projects/BeatBox/ |