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Table 4 Differential abundance of members of the family Enterobacteriaceae in DA-DTT versus DA-U

From: Optimizing microbiome sequencing for small intestinal aspirates: validation of novel techniques through the REIMAGINE study

  DA-DTT (n = 43) vs. DA-U (n = 112)
Taxonomy Average relative abundance %
DA-DTTa
Average relative abundance %
DA-Ua
Fold Change
(calculated from the GLM)b
P-value FDR P-value
c_Gammaproteobacteria, o_Enterobacteriales, f_Enterobacteriaceae 19.193 6.068 5.46 5.13E-4 1.47E-3
f_Enterobacteriaceae, g_unknown 14.984 5.227 17.00 2.72E-8 1.21E-7
f_Enterobacteriaceae, g_Klebsiella 3.812 0.784 24.10 7.13E-7 2.73E-6
f_Enterobacteriaceae, g_Providencia 0.224 0.00025 13.57 < 0.0001 < 0.0001
f_Enterobacteriaceae, g_Morganella 0.018 0.006 36.71 1.18E-9 5.81E-9
f_Enterobacteriaceae, g_Salmonella 0.006 0.001 3.71 0.01 0.02
  1. P-value< 0.05 and FDR P-value< 0.05 are shown in bold. aThe relative abundances were calculated from the original counts (number of sequences in the OTU table). bFold changes were calculated from the GLM, which corrects for differences in library size between the samples and the effects of confounding factors. It is therefore not possible to derive these fold changes from the original counts (number of sequences in the OTU table) by simple algebraic calculations