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DAVID analysis on this list of genes revealed a significant down regulation of only one set of genes involved in proteolysis (Table 4).
DAVID analysis on this list of genes revealed enrichments for two main down regulated biological processes (Table 4).
According to the FatiGo analysis on this list of Swiss-Prot entries only 35 did not have a GO annotation.
We then performed GO enrichment analysis on this list of over-expressed genes using the GO browser in GeneSpring.
We repeated the pathway analysis on this list applying the same very stringent criteria used above (Bonferroni multiple test correction and p-value significant threshold of 0.01).
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We also performed this analysis on the list of rescued genes that were orthologous to previously identified orthologs of mammalian TDP-43 targets (Sephton et al. 2011; see Table 2).
As a first step towards annotating the network and identification of sub networks with a shared biological function, we investigated which drugs and diseases in the literature are specifically linked to this network using a keyword enrichment analysis on the list of IR related genes (For details about the enrichment method see Table 1).
Manual analysis on the list of 55 false positives confirms that one or more proteins remain unidentified in 30 sentences in the preprocessing steps.
When carrying out GO ontology analysis on the list of Cluster 3 signature genes downregulated in the infarcted epicardium, we observed similar enrichment of GO lists as for the initial epicardial gene analysis, such as acute inflammatory response (GO 2526), complement activation (GO 6956), innate immune response (45087), and inflammatory response (GO 2541) (Table S4).
We based our analysis on the list of the most commonly used RTIP indicators, as indicated by the WHO 2004 report on Road Traffic Injury Prevention [ 25].
We performed GO term analysis on the list of genes that gained the H3K27me3 mark at their TSSs in QSCs during aging.
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CEO of Professional Science Editing for Scientists @ prosciediting.com