Table I.
KEGG pathways enriched with DEGs of N vs. A, N vs. C, and A vs. C.
| Term | Group | Up/down regulated | Count | % | P-value | Entrez gene ID | Fold enrichment | Bonferroni | Benjamini | FDR |
|---|---|---|---|---|---|---|---|---|---|---|
| hsa04512:ECM-receptor interaction | N vs. A | Up | 5 | 5.21 | 0.004292243 | 3918, 1282, 1284, 7450, 6382 | 7.354193274 | 0.473192807 | 0.473192807 | 5.001337745 |
| hsa04510:Focal adhesion | N vs. A | Up | 6 | 6.25 | 0.020191824 | 3918, 1282, 8503, 1284, 2002, 7450 | 3.727076591 | 0.952135026 | 0.636916977 | 21.5971279 |
| hsa05222:Small cell lung cancer | N vs. A | Up | 4 | 4.17 | 0.027067112 | 3918, 1282, 8503, 1284 | 6.021786492 | 0.983237079 | 0.558561771 | 27.91339933 |
| hsa04610:Complement and coagulation cascades | N vs. A | Down | 5 | 5.32 | 7.66E-04 | 7035, 1675, 715, 3075, 730 | 11.64475902 | 0.0737502 | 0.0737502 | 0.846730468 |
| hsa04024:cAMP signaling pathway | N vs. A | Down | 5 | 5.32 | 0.031337025 | 1909, 3725, 5348, 6262, 6662 | 4.058022081 | 0.958574286 | 0.796466922 | 29.76946113 |
| hsa00982:Drug metabolism-cytochrome P450 | N vs. C | Down | 3 | 3.19 | 0.063860849 | 125, 2327, 2949 | 7.089603283 | 0.998638427 | 0.807907585 | 51.92743956 |
| hsa05203:Viral carcinogenesis | N vs. C | Up | 6 | 5.88 | 0.043011299 | 6714, 121504, 581, 87, 5902, 896 | 3.064301552 | 0.997876983 | 0.997876983 | 40.47226822 |
| hsa00350:Tyrosine metabolism | N vs. C | Down | 3 | 1.56 | 0.053641868 | 125, 316, 3081 | 7.897142857 | 0.999414543 | 0.999414543 | 47.60595747 |
| hsa05030:Cocaine addiction | N vs. C | Down | 3 | 1.56 | 0.096458334 | 3725, 2905, 2354 | 5.640816327 | 0.99999887 | 0.998937075 | 69.55265629 |
| hsa04060:Cytokine-cytokine receptor interaction | N vs. C | Down | 6 | 3.13 | 0.099426908 | 6387, 3590, 6366, 3815, 2690, 4982 | 2.403478261 | 0.999999275 | 0.991018404 | 70.7049881 |
| hsa04610:Complement and coagulation cascades | A vs. C | Up | 8 | 4.37 | 4.58E-05 | 718, 3426, 5627, 3075, 629, 5265, 1604, 5328 | 8.175096125 | 0.007482548 | 0.007482548 | 0.055516901 |
| hsa05205:Proteoglycans in cancer | A vs. C | Up | 11 | 6.01 | 4.63E-04 | 595, 2065, 8323, 4060, 7074, 2335, 1634, 960, 4233, 7474, 5328 | 3.878061224 | 0.073089834 | 0.024982191 | 0.559605893 |
| hsa04115:p53 signaling pathway | A vs. C | Up | 5 | 2.73 | 0.014250559 | 595, 2810, 64065, 637, 894 | 5.261955528 | 0.905002436 | 0.324510279 | 15.97387522 |
| hsa04918:Thyroid hormone synthesis | A vs. C | Down | 6 | 2.48 | 0.008755536 | 7849, 5578, 3708, 5172, 7173, 2778 | 4.663667042 | 0.823146922 | 0.579460968 | 10.41228645 |
| hsa04015:Rap1 signaling pathway | A vs. C | Down | 10 | 4.13 | 0.014252214 | 5909, 5578, 3397, 2321, 3791, 3815, 2778, 5228, 83660, 9223 | 2.590926134 | 0.940862276 | 0.61039768 | 16.42925112 |
| hsa04925:Aldosterone synthesis and secretion | A vs. C | Down | 6 | 2.48 | 0.015829909 | 3777, 3164, 5578, 3708, 4929, 2778 | 4.030329542 | 0.956865767 | 0.544272203 | 18.08627865 |
C, thyroid carcinoma; A, thyroid adenoma; N, normal thyroid epithelial cells; KEGG, Kyoto Encyclopedia of Genes and Genomes; DEGs, differentially expressed genes.