Conversion factors

8 months ago by
For the paper "Emergent Stratification in Solid tumors ..." there is a conversion factor from fmol/cell to fmol/voxel (0.1fmol/cell/s to 2.25fmol/voxel/MCS). I can get the conversion from MCS to sec. However, what is the factor used for conversion of  per cell to per voxel. The paper mentions using a scaling factor to convert 5mM to 0.32fmol/voxel.

Similar conversion factors are also used in "Multiscale Modeling of Tissues " , the book chapter.

I would highly appreciate any help.
Community: CompuCell3D

2 Answers

6 months ago by
given we set voxel area to 16 um^2, voxel volume will be 64um^3:

5mM= 5e-3 mole * (1/L) * (64um^3/voxel) = 0.32e-15 mole/voxel

0.1 fmol/cell/s = 0.1 fmol * (1/cell) * (cell/(16 voxels)) * (1/s) * (360 s/MCS)=2.25 fmol/voxel/mcs
8 months ago by
I think in this simulation we used steady state diffusion solver that for a given initial and boundary condition outputs concentration numbers for each pixel. All we are saying in the paper is that whatever the solver outputs will be interpreted in such a way that when the solver outputs 0.32 fmol we interpret it as 5mM of real concentration. Simply put I can rescale concentration in any way I want i.e. when i keep diffusion constant fixed and rescale initial concentration by a factor F the field will evolve in the same way as the field that was not scaled. the only difference will be scale.

For the same paper would you be able to explain how the secretion rate of glucose from stromal cells was calculated in  the absence of the tumor. And also the threshold of 102.0 was assumed based on the cell being exposed to zero glucose concentration for 24 hours (240 MCS). I would highly appreciate if you could kindly shed some light on the calculation steps to reach that value. Thanks so much.
written 6 months ago by Mahua Roy  
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