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Table 4 Validation of species identified as differentially abundant between malignant and benign tissue samples 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 (validation cohort)
Shewanella 10.97 1.49 0.32 4.64 3.33e−06 1.6e−05*
Bacteroides fragilis 276.86 −0.08 0.24 −0.35 0.7253 0.7253
Saimiriine betaherpesvirus 17.75 −0.58 0.37 −1.54 0.1214 0.1517
Staphylococcus saprophyticus 180.95 −1.67 0.68 −2.44 0.0145 0.0242*
Vibrio parahaemolyticus 60.13 −0.62 0.19 −3.30 0.0009 0.0024*
  1. Note: Species identified as differentially abundant in the discovery cohort were tested for their differential abundance in the validation cohort. Significance was determined at an adjusted p value less than 0.05 (marked by asterisk). 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