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Moreover, for the RS calculation, the general assumption is made that a certain effector molecule modulating an enzymatic reaction step is instantaneously available and distributed equally over the whole cell (item (iii)).
Before starting the RS calculation, the effectors are classified and the upper bounds for all effectors are defined (items 1 and 2 of the general definition) based on the information from a preliminary simulation run.
Then, pairwise RS of data sets were calculated, this RS calculation procedures is described in detail using its pseudo code (illustrated in Algorithm 1).
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SOIs (Slices of Interest; 4 slices) between 6.2 9.3 μm (boxed region) were selected for R calculation.
SOIs (Slices of Interest; 4 slices) between 13.1 and 18.8 μm (boxed region) were selected for R calculation.
SOI (Slices of Interest; 4 slices) between 6.5 and 11.5 μm (boxed region) were selected for R calculation.
In this study, we define a new roundness parameter, R, to denote the circularity corrected by aspect ratio, and present a case study of R calculation using ImageJ software (ver. 1.47q) released from the US National Institute of Health (Abramoff et al. 2004; Schneider et al. 2012).
The R calculation also was performed for the markers common between Chinese Spring and W7984 assemblies.
For Cameleon analysis cpVenus and CFP emissions of the analyzed ROIs were used for the ratio (R) calculation (cpVenus/CFP) and plotted versus time.
For cameleon analysis cpVenus and CFP emissions of the analyzed ROIs were used for the ratio (R) calculation (cpVenus/CFP) and normalized to the initial ratio (R0) and plotted versus time (ΔR/R0).
For roGFP2 analysis the two emissions of the analyzed ROIs were used for the ratio (R) calculation (405/488) and normalized to the initial ratio (R0) and plotted versus time (ΔR/R0).
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