Table 1.
Genes with ≥1.5 log2-fold difference in expression between baseline and prebiotics with 6 weeks GOS prebiotics in active ulcerative colitis (n = 12).
| Public Gene IDs | Gene Symbol | Description | Chr | Strand | Start | Stop | Group | Signal Intensity, Mean (SD) (1) | Log2 Fold Change | p-Value (2) | FDR p-Value (3) | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Baseline | Prebiotic | |||||||||||
| - | - | Phosphoglucomutase (PGM5) | Chr9 | + | 68328308 | 68531061 | Coding | 5.17 (0.53) | 6.46 (0.22) | +2.5 | 0.0007 | 0.979 |
| AJ227913 | CXCL8 | Chemokine (C-X-C motif) ligand 8 | Chr4 | + | 73740506 | 73743716 | Noncoding | 6.88 (0.39) | 7.77 (0.44) | +1.9 | 0.0068 | 0.979 |
| NR_031684; uc021uim.1 | MIR302F | MicroRNA 302f | Chr18 | + | 30298910 | 30298960 | Coding | 3.82 (0.2) | 4.47 (0.26) | +1.6 | 0.0092 | 0.979 |
| - | RPL21; RPL21P28 | Ribosomal protein L21; ribosomal protein L21 pseudogene 28 | Chr13 | + | 27251309 | 27256691 | Coding | 9.87 (0.28) | 10.47 (0.26) | +1.5 | 0.0176 | 0.979 |
| Chr1 (4) | + | 212051524 | 212052006 | Noncoding | ||||||||
| BC070185 | RPL21 | Ribosomal protein L21 | Chr13 | + | 27251309 | 27256691 | Coding | 16.03 (0.3) | 16.64 (0.3) | +1.5 | 0.0317 | 0.979 |
| NR_026911 | RPL21P28 | Ribosomal protein L21 pseudogene 28 | Chr1 | + | 212051524 | 212052006 | Noncoding | 14.23 (0.29) | 14.82 (0.3) | +1.5 | 0.0327 | 0.979 |
| - | - | GRCh38.p12 primary assembly | Chr11 | - | 45689068 | 45689092 | Coding | 7.04 (0.21) | 6.43 (0.18) | −1.5 | 0.0051 | 0.979 |
| - | - | GRCh38.p12 primary assembly | Chr22 | - | 23610591 | 23610615 | Coding | 6.92 (0.29) | 6.29 (0.24) | −1.6 | 0.0081 | 0.979 |
(1) Signal intensity data are expressed as the log2 of Tukey’s bi-weight mean (SD), (2) p-value obtained via paired t-test, (3) FDR p-value significance after adjustment for false-discovery rate (Benjamini–Hochberg). (4) For this gene probe both the pseudogene and the coding gene were detected and quantified together. Results were considered statistically significant if p < 0.05. Chr, chromosome. FDR, false-discovery rate.