title: Teaching cardiac electrophysiology modeling to undergraduate students: laboratory exercises and GPU programming for the study of arrhythmias and spiral wave dynamics.
abstract: As part of a 3-wk intersession workshop funded by a National Science Foundation Expeditions in Computing award, 15 undergraduate students from the City University of New York(1) collaborated on a study aimed at characterizing the voltage dynamics and arrhythmogenic behavior of cardiac cells for a broad range of physiologically relevant conditions using an in silico model. The primary goal of the workshop was to cultivate student interest in computational modeling and analysis of complex systems by introducing them through lectures and laboratory activities to current research in cardiac modeling and by engaging them in a hands-on research experience. The success of the workshop lay in the exposure of the students to active researchers and experts in their fields, the use of hands-on activities to communicate important concepts, active engagement of the students in research, and explanations of the significance of results as the students generated them. The workshop content addressed how spiral waves of electrical activity are initiated in the heart and how different parameter values affect the dynamics of these reentrant waves. Spiral waves are clinically associated with tachycardia, when the waves remain stable, and with fibrillation, when the waves exhibit breakup. All in silico experiments were conducted by simulating a mathematical model of cardiac cells on graphics processing units instead of the standard central processing units of desktop computers. This approach decreased the run time for each simulation to almost real time, thereby allowing the students to quickly analyze and characterize the simulated arrhythmias. Results from these simulations, as well as some of the background and methodology taught during the workshop, is presented in this article along with the programming code and the explanations of simulation results in an effort to allow other teachers and students to perform their own demonstrations, simulations, and studies.
authors.affiliation: Department of Applied Mathematics and Statistics, Stony Brook University, New York, USA.
authors.forename: Ezio
authors.initials: E
authors.lastname: Bartocci
authors.forename: Rupinder
authors.initials: R
authors.lastname: Singh
authors.forename: Frederick B
authors.initials: FB
authors.lastname: von Stein
authors.forename: Avessie
authors.initials: A
authors.lastname: Amedome
authors.forename: Alan Joseph J
authors.initials: AJ
authors.lastname: Caceres
authors.forename: Juan
authors.initials: J
authors.lastname: Castillo
authors.forename: Evan
authors.initials: E
authors.lastname: Closser
authors.forename: Gabriel
authors.initials: G
authors.lastname: Deards
authors.forename: Andriy
authors.initials: A
authors.lastname: Goltsev
authors.forename: Roumwelle Sta
authors.initials: RS
authors.lastname: Ines
authors.forename: Cem
authors.initials: C
authors.lastname: Isbilir
authors.forename: Joan K
authors.initials: JK
authors.lastname: Marc
authors.forename: Diquan
authors.initials: D
authors.lastname: Moore
authors.forename: Dana
authors.initials: D
authors.lastname: Pardi
authors.forename: Sandeep
authors.initials: S
authors.lastname: Sadhu
authors.forename: Samuel
authors.initials: S
authors.lastname: Sanchez
authors.forename: Pooja
authors.initials: P
authors.lastname: Sharma
authors.forename: Anoopa
authors.initials: A
authors.lastname: Singh
authors.forename: Joshua
authors.initials: J
authors.lastname: Rogers
authors.forename: Aron
authors.initials: A
authors.lastname: Wolinetz
authors.forename: Terri
authors.initials: T
authors.lastname: Grosso-Applewhite
authors.forename: Kai
authors.initials: K
authors.lastname: Zhao
authors.forename: Andrew B
authors.initials: AB
authors.lastname: Filipski
authors.forename: Robert F
authors.initials: RF
authors.lastname: Gilmour
authors.forename: Radu
authors.initials: R
authors.lastname: Grosu
authors.forename: James
authors.initials: J
authors.lastname: Glimm
authors.forename: Scott A
authors.initials: SA
authors.lastname: Smolka
authors.forename: Elizabeth M
authors.initials: EM
authors.lastname: Cherry
authors.forename: Edmund M
authors.initials: EM
authors.lastname: Clarke
authors.forename: Nancy
authors.initials: N
authors.lastname: Griffeth
authors.forename: Flavio H
authors.initials: FH
authors.lastname: Fenton
mesh_terms: D001145:Arrhythmias, Cardiac / Q000175:diagnosis / Q000503:physiopathology*; D032882:Comprehension; D003196:Computer Graphics; D003198:Computer Simulation; D001330:Electronic Data Processing; D022062:Electrophysiologic Techniques, Cardiac; D005246:Feedback; D006329:Heart Conduction System / Q000503:physiopathology*; D006801:Humans; D007858:Learning; D008955:Models, Cardiovascular; D010827:Physiology / Q000193:education*; D011795:Surveys and Questionnaires; D013663:Teaching / Q000379:methods*; D013997:Time Factors