Microbiota of the prostate tumor environment investigated by whole-transcriptome profiling

Table 3 Differentially abundant microbial reads in various comparisons in the discovery cohort

Organism name	Base mean	Log₂ fold change	lfcSE	Wald statistic	p value	p adj
Malignant vs. benign tissue (discovery cohort)
Shewanella	11.61	1.08	0.28	3.83	0.0001	0.0042
Bacteroides fragilis	115.60	−0.76	0.17	−4.33	1.45e−05	0.0008
Saimiriine betaherpesvirus	40.72	−1.56	0.34	−4.56	4.99e−06	0.0004
Staphylococcus saprophyticus	21.99	−2.82	0.59	−4.77	1.80e−06	0.0002
Vibrio parahaemolyticus	11.78	−1.36	0.22	−6.08	1.15e−09	5.19e−07
Pathologic T-stage 3 vs. 2 (discovery cohort)
Microbacterium sp.	56.12	2.24	0.45	4.92	8.35e−07	0.0049

Note: Showing all differentially abundant microorganisms with an adjusted p value less than 0.01 and a base mean greater than 10. Base mean, mean of the normalized count across all samples. lfcSE standard error of the log₂ fold change, p-adj Benjamini-Hochberg adjusted p value

ISSN: 1756-994X