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.

Grp_photo_Jan 2014_305W_230H

What's New

Congratulations Grant Gonzalez and Michael Rosnach on the cover of Macromolecular Materials and Engineering! January 23rd, 2017

Parker Lab Artist Michael Rosnach’s illustration accompanying PhD Student Grant Gonzalez’s paper “Production of synthetic, para-aramid and biopolymer nanofibers by immersion rotary jet-spinning” was chosen for the January 2017 cover of Macromolecular Materials and Engineering.

“Utilizing a precipitant vortex, a novel nanofiber platform produces Kevlar, nylon, DNA, and alginate nanofibers for high-performance composites and tissue engineering applications.”

mame201600365_Cover Art Submission

Congratulations to Ian Perkins & Alex Cho! January 5th, 2017

The DBG would like to congratulate Ian Perkins and Alex Cho who both graduated from Northeastern University in December. Ian received his B.S. in Mechanical Engineering and Alex his B.S. in Biology. We would like to thank you both for your significant contributions to the DBG over the past several years, and we are grateful that you are both continuing with us in the lab this semester!

Congratulations Dr. Capulli! December 15th, 2016

Congratulations to Dr. Andrew Capulli who successfully defended his dissertation in December, and will continue in the DBG as a Postdoctoral Fellow.

Congratulations Dr. Nesmith! December 15th, 2016

Congratulations to Dr. Peyton Nesmith who successfully defended his dissertation last month.  We wish him the best of luck as he returns to the University of Alabama to complete his M.D.

Congratulations to Parker Lab Post-doc Johan Lind, Ph.D., on the publication of his Heart-on-a-Chip paper in Nature Materials on October 24! October 25th, 2016