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Soil profiles were dominated by small sized fragments of between 50 to 100 bp in size.
Peiró-Chova et al. [ 82] have shown that the quantity of miRNAs from FFPE samples was higher than that obtained from frozen samples, since degradation of total RNA can produce fragments in the small RNA size range that could cause an overestimation in the proportion of its small sized fragments.
Circularized DNA molecules were then sheared to small sized fragments (approximately 300-1000 bp).
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Large-size fragments are less frequent than small-size fragments in the SNaPshot HICF profiles, and are more valuable in contig assembly because they are less likely to be shared by chance [ 22].
Template preparation: starting material (genomic DNA, cDNA or immuno-precipitated DNA) is sheered to small-size fragments of 30 to 400 base pairs and ligated to a universal adapter.
Because of the logarithmic scale in sizing fragments, small differences in migration of large fragments result in large differences in molecular weight size calculation.
Due to the small size of fragments (<300 Da [ 20]), fragments form weak although high-quality interactions to the target with dissociation constants (KD) in the micromolar to millimolar range [ 2, 19].
For the large amount of small size translocated fragments in our result, the cytoband unit is too large to make a compatible comparison.
At the same time, an average of 38 small-sized fragments (range = 24 - 47 fragments, n = 11) with variable sizes from 17 – 2,000 bp were dispersed within the reference assembled genomes but were absent in their corresponding genome maps.
The fragment size distribution of the library prepared with modifications shifted towards the fraction of small-sized fragments (Fig. 2).
However, it is very difficult to make small-sized fragments by conventional stirring in solution phase.
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