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The small RNA clusters of lengths ranging from 47 nucleotides to around 7 kb were retrieved from deepBase [ 26] database.
Each fork-structure comprising two terminal branches (clusters) of lengths d1 and d2 and sizes w1 and w2 bifurcating from a stem-branch of length d s is considered in turn.
The procedure is repeated merging bifurcating clusters of lengths d1 and d2 and sizes w1 and w2 connected to a stem-branch of length d s into a larger cluster of average length d = (w1 d1 + w2 d2)/(w1 + w2) + d s and average size w = (d1 w1 + d2 w2 + d s )/ d, until the tree is reduced to two clusters connected to the root (d s = 0).
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After filtering out the sequences mapped to short clusters of length less than 50 bp, 389,038 bisulfite sequences (75% of all reads) were uniquely mapped to the non-repeat-masked human genome (NCBI build 36.1,hg18).
The majority of piRNAs locate in genome as clusters of length 20-100 kb, and it was suggested that piRNAs are originated from long transcripts then subsequently processed into ~28 nt smaller RNAs [ 9, 41].
However, consider the case when we have two genomes in a cluster, of lengths 1 Mbps and 5 Mbps respectively.
Each fork-structure is progressively replaced by a corresponding cluster of length d and size w.
Apart from reproducing the experimentally well-established lying and standing molecular orientations for small and large tube radii, respectively, we observe, depending on the tube diameter, a variety of molecular motions, orientational flipping of lying molecules, and the migration of molecules resulting in a continual rearrangement of the C70 molecules in clusters of varying lengths.
Until this time, all glass fiber had been manufactured as staple (that is, clusters of short lengths of fiber).
When the ORF length frequency of E. coli K12 genes with coding-sequence lengths >2000 bases were plotted (Figure 5B), two distinct clusters of ORF length distribution emerged: the NED pattern with an ORF maximum of ∼750 bases, similar to that in random DNA; and a second cluster of non-random, non-conforming ORFs ranging from 2000 to several thousand bases.
TUs are clusters of full-length transcripts that contain a common core of genetic information [18].
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