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Our focus for the benchmark is methods which search for TFBS using known models of binding sites, not ab initio TFBS discovery.
For this reason, more complex models of binding specificity have been developed.
Anisotropy data were fit using equations for seven distinct models of binding.
Nevertheless, parsimony-generated models of binding site evolution tend to overfit so that ReXSpecies also suffers from that overfitting.
Until we have this experimental data, mathematical models of binding sites will help us predict TFBSs and in turn help us infer regulatory effects.
All TRANSFAC mammalian matrix models of binding sites [ 28]were mapped using the Match™ program with minFP profiles for optimized thresholds of the matrix models [ 29].
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By exploring the geometry of contact distribution at protein-protein interfaces, we provide an improved model of binding energy.
The risk assessment model of binding mode is established through using AHP and fuzzy comprehensive evaluation method.
On the basis of the model of binding isotherm assumed, zonal elution was used to investigate the binding interaction of the receptor with terbutaline and salbutamol.
The quantitative model of binding specificity of murine TAP developed herein should be useful for interpreting epitope mapping and immunogenicity data obtained in humanized mouse models.
In this model of binding, the connecting residues 4 to C-1 of longer peptides are assumed to make only weak interactions with the TAP molecules.
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