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We considered a certain gene in a given sample as expressed only if the log2 of its average expression was greater than a pre-specified threshold.
In testis, average expression was not particularly high, and very few highly expressed genes were found, none corresponding to ORs previously implicated in sperm chemotaxis.
Average expression was calculated and normalized for indicated gene set using SetModuleScore function43 (Seurat).
Compared to β-1,4-galactosyltransferases the average expression was low for β-1,3-galactosyltransferases in both breeds.
The average expression was calculated for each platform for all 498 genes in common.
The average expression was 71 reads/contig, or 71transcripts/genee (Table 1).
Similar(45)
Genes with expression values <100 were considered to be unexpressed, and genes whose average expression were <100 were excluded from our analysis.
Similarly as for GSA-Tumor, if a gene set consists of multiple genes an average expression is computed for the total gene set, taking consideration to gene weights if supplied.
Average expression is a measure of reads mapped per sample.
All genes are centered so that average expression is zero before clustering.
In other words, it seems that genes with lower average expression are far more likely to be non-detects.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com