Gene ontology (GO) enrichment analysis results for significantly upregulated 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). Gene ontology (GO) enrichment analysis results for significantly upregulated genes at all time points. [Dataset]. PLOS ONE. https://doi.org/10.1371/journal.pone.0278295.s003

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The analysis was performed using the topGO R Bioconductor package. The statistical metrics presented for each process include: the total number of genes annotated to the process (Total annotated), the number of genes that were significantly up (N up) -regulated, the percent of total annotated that were up-regulated (% Up) and the number that were expected by chance (Expected). The uncorrected Fisher’s exact test p-value (Pvalue) and overall rank for over-representation of the GO term in the set using both the classic and weight01 (W1) algorithms are presented.

Keywords

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

Item Type	Dataset
Resource Type	Resource Type Resource Description Dataset Quantitative
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 10:58
Last Modified	18 Sep 2025 09:41
Publisher	PLOS ONE