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This has the effect of removing the most redundant templates and preserving the structural diversity.
This can be used for a non-redundant template database in developing protein energy function and template-based protein structure prediction.
From the top of this ranking list, we select non-redundant templates, requiring each new template to cover at least 30 additional residues that are not covered by selected higher-ranked templates.
Given an OR sequence and predicted helical boundaries, users can align it to a set of non-redundant GPCR templates in active and inactive states.
Existence of any redundant region in template will increase the matching time but will not contribute to increase the accuracy of matching.
Hence removal of redundant region of the template should be accomplished before the matching procedure.
While the use of a ChIP DNA amplification step allowed for the preparation of Illumina sequencing libraries from only 1 2 ng, or less, of ChIP DNA in this study, the relatively high proportion of redundant sequences arising from template amplification (Additional file 3: Table S1) is undesirable.
The "454" assembly was then used as template to remove redundant Illumina reads (fig. 2 B).
For future work, we plan to optimize the generation of action templates by eliminating redundant information (i.e., clustering similar instances or forgetting unused instances), and therefore reducing classification times.
Since 2D reads contain information from both template and complement strands, a non-redundant dataset would consist of 2D reads plus any remaining template or complement reads which did not get turned into 2D reads.
Secondly, the IBE was adopted to remove the redundant PZT located at the surface of the AAO template.
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