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Therefore, the specific location of the GC content contributes to the amplification bias throughout the primer:template interaction.
In order to analyze the data relevant to the random region, we filtered the data based on a 4 bp window (runway), 6 bp window (primer:template interaction), 8 bp window (primer:template interaction and 2 bps of runway), and 10 bp window (primer:template interaction and 4 bps of runway) as demonstrated in Figure 2.
There is positive amplification bias towards increasing GC content for the six base pairs of primer:template interaction for all of the commercial DNA polymerases tested.
The runway sequences in the described experiments did not have a clearly defined trend with regards to GC content like the primer:template interaction.
The similarity between the amplification profiles for both the primer:template interaction and the runway sequences of these two DNA polymerases is remarkable.
It is reasonable to consider that a primer:template interaction that has a tendency to be of the A form or a primer:template interaction that can be more easily conformed to the A form is preferentially bound by the DNA polymerase, ultimately resulting in biased amplification.
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Energy minimization of the whole complex showed, as expected, that most of the template interactions are preserved in the MTB structure, except for HIS11, ARG139 and GLN255.
However, some reports conclude that some of these parameters produce little effect on the fabricated nanostructures; rather, solution-template interaction plays a key role in determining morphology [14].
Myr-NQA (8.0 mg) was added to the solution and magnetically stirred to facilitate effective monomer-template interaction.
However, we could not exclude additional mechanisms, as it has been shown that AD 198 inhibits E. coli RNA polymerase or chicken leukemic RNA polymerase activity through drug-template interaction or enzyme inactivation, respectively [ 57].
In developing a template-assisted solution crystallisation process, the kinetics of homogeneous versus heterogeneous crystal nucleation could be influenced by solute-solvent, solute-template, and solvent-template interactions.
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