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.

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What's New

2018 DBG Family Day November 30th, 2018

Left our microscopes at the lab and did Play-Doh science at the Miller Alehouse in Watertown. Critics were small, but fair. Dr. Huibin Chang impresses judges during Play-Doh model competition with an outstanding score of 73.5 out of 20!

Our thanks to our lab members and their families, whose hard work and support makes everything possible.



Welcome, Dr. Suji Choi and Dr. Sarah Motta! October 5th, 2018

The DBG would like to extend a warm welcome to our new postdoctoral fellows, Suji Choi and Sarah Motta. Suji joins us from Seoul National University, where she completed her Ph.D. in Chemical and Biological Engineering in Prof. Dae-hyeong Kim’s Flextronics group. Sarah recently completed her Ph.D. at the Institute for Regenerative Medicine in Zurich in Tissue Engineering and Regenerative Medicine. We are excited for both of them to join us!

Welcome, Huibin! September 5th, 2018

The DBG welcomes Post-Doctoral Fellow Huibin Chang, who joined the group September 1. Huibin joins us from Georgia Tech, where he recently completed his Ph.D. in Materials Science and Engineering. Welcome, Huibin!

Congressional Staffers Visit the DBG August 31st, 2018

The DBG welcomed several opportunities so far in 2018 to discuss Federal budget appropriations to the National Institutes of Health and the Department of Defense. After discussions with staffers from Senator Elizabeth Warren (D-MA), Congresswoman Katherine Clark (D-MA), and the Senate Armed Services Committee regarding our experiences with the various offices of the DoD and NIH, we showed our work and introduced the professional staff and trainees within the laboratory. Over the years we have enjoyed interactions with a variety of elected officials and Congressional staffers who have requested to hear about our work and the challenges with funding research at the cutting edge.

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Farewell John August 20th, 2018

Congratulations to John P. Ferrier Jr., who was accepted into the Northeastern University Physics Ph.D. program in Boston. He moves to Northeastern in September 2018. Congratulations, John!