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In addition to the single gene analyses, we used Gene Set Enrichment Analysis (GSEA) algorithm, which is a microarray data analysis method that uses predefined gene sets to identify significant biological changes in microarray data sets [21].
Dihal, A. A. et al. Pathway and single gene analyses of inhibited Caco-2 differentiation by ascorbate-stabilized quercetin suggest enhancement of cellular processes associated with development of colon cancer.
The strongest phylogenetic support came from single gene analyses of the 123cdp alignments.
It seems likely, based on the concordance seen here by the three GWAS studies in Edwards et al. [1] and the gene expression data, that pathway analyses are more likely to replicate across GWAS studies than single gene analyses.
However, no effect of age*experience was seen, and all contrasts between ME vs. MN, or ME vs. IN, IE, and MN were non-significant in the single gene analyses (P>0.05).
As described in the Methods section, in addition to the single gene analyses we used the GSEA algorithm, which is a microarray data analysis method that uses predefined gene sets and ranks of genes to identify significant biological changes in microarray data sets [21].
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Next-generation sequencing methods provide an opportunity for molecular pathology laboratories to perform genomic testing that is far more comprehensive than single-gene analyses.
Single-gene analyses indicate that maternal genes associated with metabolic conditions (e.g., obesity) may influence the risk of neural tube defects (NTDs).
Results from the four-gene analyses mirrored those from the single-gene analyses.
The same software was also used for single-gene analyses including fold-change calculations and filtering the probes.
A number of single-gene analyses were also performed, which in general were less informative (Tables S2, S3, S4, S5, S6, S7, S8, S9, S10, S11).
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