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As intronic background levels for position −3, we used the mean level of reads in positions +100 to +200 of the downstream intron.
As intronic background for position −2, we used the mean level of reads in position −200 to −100 of the upstream intron.
To quantitatively assess to what extent normalization decreased the peak, we examined the fold change in the peak in GRO-seq reads in positions −2 and +3 with respect to the intronic background level of reads.
There is some variability in data sets with respect to number of HG genes for each abundance level of reads.
Read density in the windows is normalized to the level of reads at the 3′ SS, to compensate for expression differences between genes.
We observed a low level of reads along the length of each chromosome and sequence enrichment (relative to input) at ∼8200 regions across the fer-1 genome.
Similar(50)
Number of reads, % of unique and duplicated reads and resulted mean coverages are reported.
d Number of reads that could not be mapped to the assembled pseudomolecules.
c Number of reads that mapped to multiple positions on the assembled pseudomolecules with the same score.
b Number of reads after filtering.
a Number of reads prior to filtering.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com