Functional Annotation Clustering in database for annotation, visualization, and integrated discovery

Gene lists of 18Q vs. WT and 79Q vs. WT used for DAVID Functional Annotation Clustering were retrieved by filtering each limma dataset to only retrieve genes with an adj. p-value < 0.05. The 18Q vs. WT and 79Q vs. WT datasets were subsequently sorted into three gene sets: shared genes, unique genes for 18Q vs. WT, and unique genes for 79Q vs. WT. The shared and unique gene lists (ENTREZ IDs) were imported into DAVID² (Huang da et al., 2009; Sherman et al., 2022) for Functional Annotation Clustering. Three categories were used: UP_KW_BP, GOTERM_BP_DIRECT, and KEGG_PATHWAY. The default settings for Functional Annotation Clustering were used, including the Classification Stringency of “Medium.” Gene lists with Annotation Summary Results and Functional Annotation Clustering outputs from DAVID are listed in Supplementary Data Sheet 2.