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While sequences containing a certain binding site pair can be significantly overrepresented in the foreground set, the association of the two sites might not be significant per se, e.g. enrichment may be determined by only one type of sites.
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Although there are examples that imperfect 7-nt seed site pairing can be functional, there is overwhelming evidence to support the hypothesis that Watson-Crick pairing to the miRNA seed site is the most important feature for miRNA prediction and function [ 6, 7].
These pairs of proteins were identified by an all-against-all comparison of SCOP (Structural Classification of Proteins) representatives and the similar binding site residues identified in each protein pair can be superimposed with low RMSD.
Moreover, because PHASE uses Markov Chain Monte Carlo to sample the posterior distribution of potential haplotype pairs that could account for an observed ambiguous genotype, confidence probabilities for the phase of each segregating site and for each reconstructed haplotype pair can be estimated.
> In PPCP, a generic primer pair can be employed for different target genes cloned into the multi-cloning sites of an expression plasmid vector.
GU pairs can be metal ion binding sites.
These preferred residues pairs can be effectively used for identifying the binding sites in protein-RNA complexes.
The performance of the previous encoder-decoder pairs can be notably improved by conditional transmission at the encoder site.
Importantly, such pairs can be conjugated to generate reagents that achieve two-site "bidentate" target recognition, with affinities greatly exceeding either monovalent component.
Specific candidate sRNA-target pairs can be tested via a modified 5′ RACE assay to detect transcript slicing at sites that correspond to sRNA sequences [ 58].
The pairing can be predictable, or surprising, serious, or humorous.
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