Table 5.
GO (biological process) and KEGG pathway over representation analysis of ME8 module and list of involved genes in wild-type and IL-1b KO mice exposed to acrylamide at 0, 12.5, 25 mg/kg for 28 days by oral gavage
| Gene | Regulation | q value | Fold change | Wild-type (mg/kg) (mean ± SD) | IL-1b KO (mg/kg) (mean ± SD) | GO/KEGG term | ||||
|---|---|---|---|---|---|---|---|---|---|---|
| 0 | 12.5 | 25 | 0 | 12.5 | 25 | |||||
| MACF1 | Upregulated | 1.27E−20 | 1.951 | 270 ± 34 | 242 ± 8 | 266 ± 14 | 253 ± 23 | 528 ± 63 | 365 ± 13 | GO-CC: 0005737-cytoplasm |
| YWHAH | Upregulated | 5.08E−05 | 1.537 | 4874 ± 2777 | 5990 ± 851 | 6335 ± 937 | 6201 ± 487 | 7494 ± 1116 | 6304 ± 933 | GO-CC: 0045202-synapse, GO-CC: 0098793-presynapse,GO-CC: 0005829-cytosol |
| MT2 | Upregulated | 0.00586 | 1.287 | 490 ± 115 | 608 ± 131 | 632 ± 106 | 451 ± 86 | 519 ± 137 | 546 ± 78 | GO-CC: 0005829-cytosol, GO-CC: 0005737-cytoplasm |
| RPS27A | Upregulated | 0.012784 | 1.163 | 2972 ± 314 | 3458 ± 257 | 3353 ± 967 | 2687 ± 280 | 2617 ± 531 | 2908 ± 575 | KEGG-mmu03010: Ribosome, GO-CC: 0022626-cytosolic ribosome, GO-CC: 0005840-ribosome, GO-CC: 0022627-cytosolic small ribosomal subunit, GO-CC: 0045202-synapse, GO-CC: 0098794-postsynapse, GO-CC: 0015935-small ribosomal subunit, GO-MF: 0003735-structural constituent of ribosome, GO-BP: 0002181-cytoplasmic translation, GO-BP: 0006412-translation |
| RPL18 | Upregulated | 0.041199 | 1.152 | 1185 ± 57 | 1366 ± 104 | 1276 ± 243 | 1110 ± 137 | 1045 ± 164 | 1215 ± 150 | KEGG-mmu03010: Ribosome, KEGG- mmu05171: Coronavirus disease—COVID-19, GO-CC: 0022626-cytosolic ribosome, GO-CC: 0005840-ribosome, GO-CC: 0045202-synapse, GO-CC: 0022625-cytosolic large ribosomal subunit, GO-CC: 0015935-small ribosomal subunit, GO-CC: 0005737-cytoplasm, GO-CC: 0005829-cytosol, GO-CC: 0042788-polysomal ribosome, GO-MF: 0003735-structural constituent of ribosome, GO-BP: 0002181-cytoplasmic translation, GO-BP: 0006412-translation |
| PTPRN2 | Downregulated | 0.017284 | 0.715 | 171 ± 28 | 171 ± 14 | 152 ± 20 | 142 ± 22 | 122 ± 21 | 143 ± 30 | GO-CC: 0045202-synapse, GO-CC: 0098793-presynapse,GO-CC: 0005737-cytoplasm |
| RPS20 | Downregulated | 4.63E−05 | 0.706 | 1566 ± 220 | 1647 ± 176 | 1497 ± 419 | 1306 ± 112 | 1106 ± 200 | 1269 ± 222 | KEGG-mmu03010: Ribosome, KEGG-mmu05171: Coronavirus disease—COVID-19, GO-CC: 0022626-cytosolic ribosome, GO-CC: 0005840-ribosome, GO-CC: 0022627-cytosolic small ribosomal subunit, GO-CC: 0045202-synapse, GO-CC: 0098794-postsynapse, GO-CC: 0015935-small ribosomal subunit, GO-MF: 0003735-structural constituent of ribosome, GO-BP: 0002181-cytoplasmic translation, GO-BP: 0006412-translation |
| KLC2 | Downregulated | 0.008854 | 0.679 | 247 ± 37 | 226 ± 20 | 207 ± 54 | 190 ± 36 | 168 ± 35 | 204 ± 38 | GO-CC: 0005829-cytosol |
| RPS2 | Downregulated | 1.02E−06 | 0.672 | 2142 ± 339 | 2303 ± 299 | 2155 ± 324 | 2203 ± 290 | 1441 ± 216 | 1935 ± 363 | KEGG-mmu03010: Ribosome, KEGG-mmu05171: Coronavirus disease—COVID-19, GO-CC: 0022626-cytosolic ribosome, GO-CC: 0005840-ribosome, GO-CC: 0045202-synapse, GO-CC: 0015935-small ribosomal subunit, GO-CC: 0005829-cytosol, GO-MF: 0003735-structural constituent of ribosome, GO-BP: 0002181-cytoplasmic translation, GO-BP: 0006412-translation |
| EEF1A2 | Downregulated | 1.46E−08 | 0.568 | 528 ± 64 | 483 ± 67 | 422 ± 91 | 361 ± 64 | 300 ± 44 | 401 ± 88 | GO-CC: 0045202-synaps, GO-CC: 0005737-cytoplasm |
| N-R5S113 | Downregulated | 0.02546 | 0.318 | 10 ± 4.0 | 8.9 ± 3.6 | 8.2 ± 1.8 | 3.2 ± 1.4 | 3.2 ± 3.2 | 6.7 ± 7.3 | KEGG-mmu03010: Ribosome, KEGG-mmu03008: Ribosome biogenesis in eukaryotes |
| N-R5S111 | Downregulated | 0.045153 | 0.31 | 14.6 ± 4.6 | 13 ± 6.9 | 11.3 ± 7.7 | 8.4 ± 2.8 | 5.2 ± 3.2 | 7.1 ± 4.7 | KEGG-mmu03010: Ribosome, KEGG-mmu03008: Ribosome biogenesis in eukaryotes |
| N-R5S121 | Downregulated | 0.02531 | 0.316 | 15.8 ± 4 | 10.6 ± 4.6 | 11.0 ± 4.9 | 6.4 ± 2.8 | 5 ± 4.3 | 9.4 ± 8.3 | KEGG-mmu03010: Ribosome, KEGG-mmu03008: Ribosome biogenesis in eukaryotes |
DAVID software was used for analysis. Data of normalized values for gene expression are mean ± SD, n = 6. All P values for the gene expression were adjusted using Benjamini–Hochberg method and expressed as q values. Fold change represents the ratio of the mean of any group to the mean of the 0 mg/kg wild-type group when the absolute value of logarithm of the ratio is the maximum
MACF1 microtubule actin crosslinking factor 1, YWHAH tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein eta, MT2 metallothionein 2, RPS27A ribosomal protein S27a, RPL18 ribosomal protein l18, PTPRN2 protein tyrosine phosphatase receptor type N2, RPS20 ribosomal protein S20, KLC2 kinesin light chain 2, RPS2 ribosomal protein S2, EEF1A2 elongation factor 1-alpha 2, n-R5s113 nuclear-encoded rRNA 5S 113, n-R5s111 nuclear-encoded rRNA 5S 111, N-R5S121 nuclear-encoded rRNA 5S 121