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

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

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
  1. 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