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The influence of DNA molecule depth on map assembly were investigated and discussed.
Considering the trade-off between experimental cost and proper genome map assembly, a molecule depth of ~100X may represent an optimal molecule depth with the best cost/performance ratio for the whole-genome mapping of large yellow croaker.
The further accumulation of molecule depth larger than 100X led to relatively smaller changes of map number and N50 length.
Although a slightly weakening tendency was observed with molecule depth from 70X to 100X, both map number (715) and N50 length (~1.58 Mb) were significantly improved.
Figure 3 showed that N50 length of genome maps exceeded 1 Mb with a molecule depth of 50X and increased almost linearly by improving molecule depth from 30X to 70X, while the corresponding total map number decreased sharply from 1162 (30X) to 799 (799).
This analysis offered a valuable reference for the following projects using the whole-genome mapping technique to construct genome maps for other non-model organisms, but the caution should always be taken that the optimal molecule depth might vary with genomic complexity in organisms.
Similar(53)
As light is absorbed by hemoglobin and other molecules, the depth of penetration is limited (usually <1 cm).
When molecules exit the depth of focus the trace is stopped, in order to avoid reconnection errors.
For R1 (reactiontion, according to Ref. [12], 1A' state has a deep well in bent geometry corresponding to stable HOCl (HClO) molecule and the well depth is -102.16 (-48.20) kcal/mol.
Stabilization of the favorable transition state by a CH/π interaction between the η6-p-cymene ligand and the substrate molecule is explored in depth to show that both C sp2)H/π is more probable than C sp3)H/π in this molecular system.
Thus, next generation sequencing methods provide the opportunity for detecting miRNA molecules at an unrivalled depth.
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