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Functional Annotation Clustering was then performed using the DAVID system.
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The p-values obtained were calculated using the DAVID annotation system [ 33].
Therefore, Functional Annotation Clustering of genes present in each gene expression cluster was also performed using the DAVID analysis system.
For the results of additional analysis using the DAVID annotation system see Additional File 5 (genes related to cellular adhesion, cytoskeleton, or motility) and Additional File 6 (genes related to the nervous system).
To identify biological processes that were significantly changed with passages, the identified DE genes were analyzed using the DAVID functional annotation system (National Institute of Allergy and Infectious Diseases, NIH) [ 21].
In order to understand the biological relevance of the DE genes, we analyzed the DE genes by using the DAVID functional annotation system [ 21].
Listed are GO categories identified through enrichment testing of the differentially expressed genes from NHDF cells using the DAVID functional annotation system as described in the methods section.
To characterize the nature of Rbf1 direct targets, we performed GO analysis on genes associated with the greatest confidence peaks using the DAVID annotation analysis system (Huang da et al. 2009).
We then performed bioinformatic analyses on the differentially expressed proteins using the DAVID Bioinformatics Resource 6.7 (http://david.abcc.ncifcrf.gov/) and Ingenuity Pathway Analysis (IPA; Ingenuity Systems: http://www.ingenuity.com).com
A gene ontology (GO) analysis was performed using the DAVID website.
Using the DAVID functional annotation clustering tool, the up- and down-regulated genes can be categorized into 176 and 146 overlapping functional gene clusters, respectively.
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