Exact(3)
We used a variety of techniques to increase insert size including varying tissue sources, the enzymes for partial restriction digestion, the cloning vectors, the vector to insert ratio used in ligation, and the ligase concentration.
The straightforward approach is to increase insert size.
For efficient data production, we introduced modifications to a standard library preparation protocol to increase insert length, and exerted paired-end reads whose lengths were 150 nucleotides (nt) or more [ 23].
Similar(57)
The initial rise is simply due to the increased insert lengths, thus increasing the probability for nearby unique regions to be connected by mate-pairs.
For increasing insert size variability relative to the mean, we observed a significant anti-correlation (c=−0.26, P < 6.1×10−11).
It is apparent that each probe created a zone of depletion that grew wider with increasing insert size.
The three mate-pair libraries were added in order of increasing insert size (3 kb, 8 kb and 10 kb) as advised by the SSPACE authors.
Detection of inversions which do not display the funnel requires altering these parameters (for example, increasing insert size) or applying complementary approaches (for example, coverage trends).
These correlation coefficients could be confirmed by a quality-filtered set of paired-end calls (≥3 supporting pairs, avg. mapping quality ≥20) with regard to insert size (c=0.24, P =7.2×10−10) and increasing insert size variability (c= −0.19, P = 7.5×10−7).
Therefore, for stacking of more than two genes in cisgenic transformation, the effect of an increased insert size (e.g. >11 kb) on transformation frequency remains to be tested.
Consider M read-pair libraries, which are sorted in the order of increasing insert sizes and the associated decision rules Extend i(P) for 1 ≤ i ≤ M. We process the libraries in this order because our analysis revealed that the smaller is the insert size of a library (and its variation), the more reliable is the decision rule for this individual library.
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