KEGG pathway enrichment analysis results for significantly differentially expressed genes at all time points

Meier, S, Seddon, JA, Maasdorp, E, Kleynhans, L, du Plessis, N, Loxton, AG, Malherbe, ST, Zak, DE, Thompson, E, Duffy, FJ, Kaufmann, SHE, Ottenhoff, THM, Scriba, TJ, Suliman, S

, Sutherland, JS

, Winter, J, Kuivaniemi, H

, Walzl, G and Tromp, G

(2022). KEGG pathway enrichment analysis results for significantly differentially expressed genes at all time points. [Dataset]. PLOS ONE. https://doi.org/10.1371/journal.pone.0278295.s004

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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.

Keywords

Tuberculosis diagnosis and management, Neutrophils, Tuberculosis, Catalysis, Platelets, Mycobacterium tuberculosis, Gene expression, Gene ontologies

Item Type	Dataset
Capture method	Unknown
Date	1 December 2022
Language(s) of written materials	English
Creator(s)	Meier, S, Seddon, JA, Maasdorp, E, Kleynhans, L, du Plessis, N, Loxton, AG, Malherbe, ST, Zak, DE, Thompson, E, Duffy, FJ, Kaufmann, SHE, Ottenhoff, THM, Scriba, TJ, Suliman, S, Sutherland, JS , Winter, J, Kuivaniemi, H, Walzl, G and Tromp, G
LSHTM Faculty/Department	MRC Unit The Gambia at LSHTM
Participating Institutions	London School of Hygiene & Tropical Medicine, London, United Kingdom
Date Deposited	12 Dec 2022 11:03
Last Modified	12 Dec 2022 11:03
Publisher	PLOS ONE