pone.0278295.s004.xlsx (183.09 kB)
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KEGG pathway enrichment analysis results for significantly differentially expressed genes at all time points.

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posted on 2022-12-01, 18:50 authored by Stuart Meier, James A. Seddon, Elizna Maasdorp, Léanie Kleynhans, Nelita du Plessis, Andre G. Loxton, Stephanus T. Malherbe, Daniel E. Zak, Ethan Thompson, Fergal J. Duffy, Stefan H. E. Kaufmann, Tom H. M. Ottenhoff, Thomas J. Scriba, Sara Suliman, Jayne S. Sutherland, Jill Winter, Helena Kuivaniemi, Gerhard Walzl, Gerard Tromp

The analysis was performed using the kegga function from the edgeR R Bioconductor package. The statistical metrics presented for each pathway include: the total number of genes annotated to the pathway (Total annotated), the number of genes that were significantly up (N Up) or down (N Down) -regulated, the % of the total annotated that were up (% Up) or down (% Down) -regulated and the uncorrected Fisher’s exact test p-value (Pvalue) for up and down comparisons (P Up, P Down) for over-representation of the KEGG pathway in the set.