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Genes with less than two samples expressed at two counts-per-million or greater were considered beneath the threshold of detection and filtered from all analyses.
Additionally, we avoided selecting genes with less than three probes per transcript-specific probe set.
An additional filter excluded genes with less than 2-fold difference from controls.
We removed genes with less than 25 total hits across 25 samples, leaving ∼18K genes.
We removed genes with less than 25 total reads across the samples, leaving ∼18K genes.
We find that with 50x coverage we can infer the frequencies of three-isoform genes with less than 5% error.
Domestic dog samples showed a different pattern in both genes with less mutations appearing in only one sample.
However, the overall trend suggests that upstream regions of stage-restricted genes exhibit greater conservation than the upstream regions of genes with less stage restriction.
This implicated that text-mining with efficient algorithm may exhibit a useful strategy to quickly discover the relationship between diseases and genes with less bias [19], [46].
In a simulation data file, if genes with less than half of the modal variance were selected, 77 out of 78 genes are undefined.
As we only considered DEGs with at least 1.5-fold change for further analysis, genes with less than 1.5-fold change can be excluded before statistics testing.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com