Mathematical Descriptions of Calcium Dynamics in the Neuroblastoma Cell

Morphological control of inositol-1,4,5-trisphosphate-dependent signals.

Fink, C. C., B. Slepchenko, I. I. Moraru, J. Schaff, J. Watras, and L. M. Loew. 1999.

J. Cell Biol. 147:929-936.

An image-based model of calcium waves in differentiated neuroblastoma cells.

Fink, C. C., B. Slepchenko, I. I. Moraru, J. Watras, J. Schaff, and L. M. Loew. 2000.

Biophys. J. 2000 79:163-183.


There are five mathematical descriptions from the following two publications that were generated using the Virtual Cell software.

Refer to the detailed model description that describes the following mathematical descriptions. NE_Full is best described in the model description while the other models have slight variations to the description. See Virtual Cell Calcium Dynamics for an introduction to the experiment and to view the experimental and simulation data.


Please register as a Virtual Cell user to gain access to the mathematical descriptions that were generated using the Virtual Cell software. Once you have registered and started the VCell Software; select the Math workspace tab. Go to View and deselect the default Private only, so you may see the public files. In the MathModel database panel, open the boris folder. Within this directory, you will find the math descriptions listed below. Select a folder and use either the Open icon or go to File>Open to load the description. (Refer to the VCell Users Guide for a complete description on the VCell software.)

Mathematical Descriptions:

NE_DifferentGeom1
Basic model for simulations presented in Biophys. J., July 2000. It uses experimental ER and BkR distributions. Geometry from the image cellmnucnew2.tif

NE_DifferentGeom2_1
Simulation presented in Biophys. J. July 2000 with bipolar geometry from the image bpolargeo2.tif

NE_DifferentGeom3
Simulation presented in Biophys. J., July 2000 with geometry from the image 525am.tif

NE_Full
Simulation provides the best fit to experimental data presented in J. Cell Biol., November 1999 and on WWW (Calcium Dynamics). It uses ER and BkR distributions that are slightly different from experimental. Geometry from the image mask2_smallnucl.tif

NE_Full_best
Best fit to experimental data presented in Biophys. J., July 2000. Geometry from the image cellmnucnew2.tif