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For each simulation, we chose a different set of parameters by modifying a template parameter set.
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The pre-processing included the creation of a series of templates in order to derive the best possible parameter set for normalization.
Therefore, a complex pre-processing procedure was employed as described before [ 38] consisting of the creation of a series of templates in order to derive the best possible parameter set for normalization.
Total AP-1 activity dynamics for each perturbed parameter set were then calculated by simulating AT1RGRN, and the AP-1 response was classified using the template matching procedure of Pavlidis et al [ 42].
This process yields the "estimated parameter set".
The alignments of nematode vs. reference proteins were applied as restraints of the target proteins related to the templates, with other parameters set to default.
For the docking purpose, the ATP site within VEGFR-2 was defined as the ligand-binding site following the template of 1Y6B, and ellagic acid was docked into VEGFR-2 with proper parameter setting.
This means Template Interactive Media Limited can only use your personal data within the parameters set by the BBC.
Again, a set of input files for the simulations was generated from the templates, and the parameter sets were scored by running and analyzing the respective simulations.
sn.c : runs one parameter set.
Parameter set of the model epidermis.
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