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4D Cell Membrane Visualization and Quantification

version 1.0.12 (16.2 MB) by Marcel Hörning
Visualization and quantification of spatiotemporal membrane signaling

30 Downloads

Updated 17 Sep 2021

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This MATLAB package is used to extract, visualize, and quantify spatiotemporal membrane signaling of time resolved 3D confocal microscopy observed single cells. It provides
- basic cell parameter, such as cell volume and membrane area
- 3D animation of extracted membrane signaling
- Mollweide projected 2D animation of extracted membrane signaling
- detrended fluctuation analysis (DFA) for each membrane site, quantification and 2D Mollweide projected map of DFA parameter
- preparation for WAVOS (Morlet Wavelet) analysis
- an example dataset of a Dictyostelium cell
CITING: Please cite the following papers when using this code:
1) Hörning, M. and Shibata, T. (2019). Three-Dimensional Cell Geometry Controls Excitable Membrane Signaling in Dictyostelium Cells. Biophysical Journal 116, 372–382. https://doi.org/10.1016/j.bpj.2018.12.012
2) Hörning, M., Bullmann, T. and Shibata, T. (2021). Local membrane curvature pins and guides excitable membrane waves in chemotactic and macropinocytic cells - biomedical insights from an innovative simple model. Frontiers in Cell and Developmental Biology, 9, 2467. https://doi.org/10.3389/fcell.2021.670943
The following open sources have been used:
Mesh Generator:
Persson, P.-o. and Strang, G. (2004). A Simple Mesh Generator in MATLAB. SIAM Review 46, 2004
Download: http://persson.berkeley.edu/distmesh/
Detrended Fluctuation Analysis:
Abrar Habib (2017). r-DFA : Robust Detrended Fluctuation Analysis

Cite As

Marcel Hörning (2022). 4D Cell Membrane Visualization and Quantification (https://www.mathworks.com/matlabcentral/fileexchange/97802-4d-cell-membrane-visualization-and-quantification), MATLAB Central File Exchange. Retrieved .

MATLAB Release Compatibility
Created with R2021a
Compatible with any release
Platform Compatibility
Windows macOS Linux

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