Multiscale 3D Granuloma Simulations

Multiscale Granuloma Simulations
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Movie 2: Visualizing the simulated Tumor necrosis factor (TNF) chemical gradient at day 50 through slices and surfaces

This figure depicts the Tumor necrosis factor (TNF) gradient at day 50 using two different methods: (i) a 2D yz-slice, and (ii) 3D level sets. In (i), we show the 2D TNF gradient, using the color bar on the right to define concentration intensity. As the movie plays, this 2D yz-slice slides from x=1 through to x=100. In (ii), we use 3D level sets to depict the 3D spatial distributions of two biologically-relevant TNF concentrations for macrophage movement. The green 3D surface encloses grid compartments in which the TNF concentration is 0.5 or greater (i.e. level set = 0.5); this is the minimum concentration that macrophages can sense, and thus a concentration below this value is not detectable by macrophages. The purple 3D surface encloses grid compartments in which the TNF concentration is 50 or greater (i.e. level set = 50); this is the maximum concentration that macrophages can sense, i.e., the concentration at which a compartment is considered "saturated" for macrophage sensitivity (99% saturation according to Michaelis-Menten).

To play the movie, click on the graphic image above

Right click or CTRL-click on MP4 icon,
select "Save Link As" or "Save Target As"
to download the archived MP4 movie file version of
Movie 2.

To extract the MP4 movie from the archive, download the archive
to your Mac or Windows desktop, double-click on them, and follow the
on-screen instructions.

To extract on Linux, Unix, BSD, etc... use the command in a shell
'unzip (filename.zip)' or a desktop extraction utility.

Movie 1	Movie 2
Visualizing z-slices of the three different simulated chemical gradients over time	Visualizing the simulated Tumor necrosis factor (TNF) chemical gradient at day 50 through slices and surfaces
Movie 3	Movie 4
Visualizing the agents in 3D	Visualizing the agents through a single z-slice of the 3D simulated data

[ Multiscale 3D Granuloma Simulations Homepage | Kirschner Lab Time-Lapse Simulations Homepage ]