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Table 3 Differential abundance of members of the phylum Proteobacteria 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 %
Average relative abundance %
Fold Change
(calculated from the GLM)b
P-value FDR P-value
p_Proteobacteria, c_Gammaproteobacteria 23.823 10.492 8.44 8.3E-9 4.25E-8
p_Proteobacteria, c_Alphaproteobacteria 1.294 0.145 7.94 4.05E-9 2.60E-8
p_Proteobacteria, c_Deltaproteobacteria 0.008 0.001 6.35 3.08E-5 9.70E-5
p_Proteobacteria, c_Betaproteobacteria 3.569 4.029 −1.26 0.41 0.56
p_Proteobacteria, c_Epsilonproteobacteria 0.281 0.167 1.74 0.14 0.29
  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