SimChip--computer simulation of mRNA steady states.
We developed a public Internet program called SimChip (www.simchip.de). It performs virtual "in silico experiments", which reflect the in vivo situation of gene expression. Our computer model simulates up- and downregulation of genes on the basis of differential equations for linear synthesis and non-linear decay of mRNA. Steady-state concentrations are described as ratios of the respective rate constants: c = S/D. Using physiological synthesis rates of 0 to 50 mRNA molecules per min per cell and decay rates of 0.05 to 25% per min, SimChip helps to understand the right-skewed distribution patterns of gene expression levels and calculates the experimental endpoint of the theoretically infinite time needed to achieve perfect equilibrium.
Hoffmann
Georg
G
Institute for Molecular Oncology, Martinsried, Germany. hoffmann@trillium.de
Ostermeir
Rasso
R
Müller
Holger
H
Bitterlich
Norman
N
Martus
Peter
P
Neumaier
Michael
M
D003198:Computer Simulation; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D006801:Humans; D020407:Internet; D008957:Models, Genetic; D012333:RNA, Messenger / Q000378:metabolism*
D012333:RNA, Messenger