Spark Analysis Detection

Source Code / Test Data

The material here is based on the algorithm described in Mark-Anthony Bray, Nicholas A. Geisse and Kevin Kit Parker, “Multidimensional detection and analysis of Ca2+ sparks in cardiac myocytes,” Biophysical Journal, 92(12): pg 4433 – 4443 [Link].

Movie (supplemental data) – Movie recorded from an isotropic monolayer of neonatal rat cardiac myocytes, loaded with the Ca2+ sensitive dye Fluo-4. The tissue exhibits several tissue-wide calcium transients, accompanied by spark activity.
(Quicktime, Download).

Available Files

  • Distribution details, including specifics of the files available (Download).
    Please see the distribution file for details on the source code and the format and contents of the test data.
  • MATLAB source code and GPL for spark detection (Download).
  • Spark synthetic data with uniform background flourescence. (Download). ZIP file, 65.6 MB.
  • Spark synthetic data with Ca2+ reuptake background flourescence. (Download). ZIP file, 65.6 MB.

License

This toolbox is released under the GNU General Public License (GPL, see http://www.gnu.org/licenses/gpl.html). This is a copyleft license, which means you have the freedom to use, distribute and modify the code, but only on the condition that you must pass on this freedom. You can integrate this code into proprietary packages, but you must do so according to this rule. That is, some parts of your proprietary package will not have this freedom, but those parts derived from this code must retain that freedom. You must use, distribute and develop the code herein in accordance with the GPL.

DSC9881

What's New

Farewell Charles Alver! August 13th, 2018

The DBG would like to thank Charles Alver for his time in the group and to wish him the best of luck in the Medical Scientist Training Program at the University of Miami!

Thank you to our 2018 summer students! August 13th, 2018

Thank you the undergraduate students who visited our lab this summer. We wish you all the best in your future endeavors!

 

Sydney Reed, Mississippi State University
Karla Rivera, Barry University
John Doyle, University of Massachusetts at Lowell
Chris Grouard, Bunker Hill Community College
Jesse Palmer, United States Military Academy at West Point
Sayo Eweje, Harvard University
Michael Peters, Harvard University

The DBG welcomes visiting faculty July 27th, 2018

The Disease Biophysics Groups welcomes visiting falculty Professor Renita Horton from Mississippi State University, Professor Kwanwoo Shin from Sogang University, and Colonel John Burpo, the chair of the Chemistry Department at West Point. The Disease Biophysics Group would also like to thank the faculty members for working with our researchers during their visit.

Welcome Summer REU Students and West Point Cadets! July 27th, 2018

The Disease Biophysics Group would like welcome our 2018 summer REU students and West Point Cadets for the summer. Good luck on your research projects!

The Disease Biophysics Group welcomes new Staff member July 27th, 2018

The Disease Biophysics Group would like to welcome our newest staff scientist, Daniel Drennan, to the group!