Table 1.
Top 50 DEG genes, 25 upregulated and 25 downregulated, between the paired colorectal adenocarcinoma and adenoma samples (presented by FC)
| Gene | RefSeq | Description | FCa | FDRb |
|---|---|---|---|---|
| Upregulated | ||||
| SFRP4 | NM_003014.3 | secreted frizzled-related protein 4 | 4.51 | 0.00072 |
| SIM2 | NM_005069.3 | single-minded family bHLH transcription factor 2 | 4.26 | 7.63E-07 |
| EREG | NM_001432.2 | epiregulin | 3.54 | 0.01111 |
| FAP | NM_001291807.1 | fibroblast activation protein, alpha | 3.34 | 0.00112 |
| COL11A1 | NM_001190709.1 | collagen, type XI, alpha 1 | 3.09 | 0.00228 |
| FUT1 | NM_000148.3 | fucosyltransferase 1 | 3.04 | 0.00017 |
| ESM1 | NM_001135604.1 | endothelial cell-specific molecule 1 | 2.98 | 0.00060 |
| FABP6 | NM_001040442.1 | fatty acid binding protein 6, ileal | 2.95 | 0.00420 |
| IL8 | NM_000584.3 | interleukin 8 | 2.94 | 0.02829 |
| OSM | NM_020530.4 | oncostatin | 2.87 | 0.00913 |
| IL6 | NM_000600.3 | interleukin 6 | 2.76 | 0.03991 |
| COL1A1 | NM_000088.3 | collagen, type I, alpha 1 | 2.75 | 0.00181 |
| STC2 | NM_003714.2 | stanniocalcin 2 | 2.74 | 0.00060 |
| TDO2 | NM_005651.3 | tryptophan 2,3-dioxygenase | 2.69 | 0.00264 |
| OTX1 | NM_001199770.1 | orthodenticle homeobox 1 | 2.68 | 0.01271 |
| WNT2 | NM_003391.2 | wingless-type MMTV integration site family member 2 | 2.65 | 0.00601 |
| CTHRC1 | NM_001256099.1 | collagen triple helix repeat containing 1 | 2.51 | 0.00401 |
| COL8A1 | NM_001850.4 | collagen, type VIII, alpha 1 | 2.50 | 0.00706 |
| NOX4 | NM_001143836.2 | NADPH oxidase 4 | 2.49 | 0.00154 |
| TNFAIP6 | NM_007115.3 | tumor necrosis factor, alpha-induced protein 6 | 2.48 | 0.00776 |
| INHBA | NM_002192.2 | inhibin, beta A | 2.47 | 0.00594 |
| CYR61 | NM_001554.4 | cysteine-rich, angiogenic inducer, 61 | 2.41 | 0.01300 |
| GREM1 | NM_001191322.1 | gremlin 1, DAN family BMP antagonist | 2.40 | 0.03523 |
| CXCL10 | NM_001565.3 | chemokine (C-X-C motif) ligand 10 | 2.40 | 0.01026 |
| ETV4 | NM_001079675.2 | ets variant 4 | 2.19 | 0.00060 |
| Downregulated | ||||
| CLCA1 | NM_001285.3 | chloride channel accessory 1 | −7.97 | 0.00155 |
| DEFA5 | NM_021010.1 | defensin, alpha 5, Paneth cell-specific | −6.31 | 0.00844 |
| ITLN1 | NM_017625.2 | intelectin 1 | −6.29 | 0.00668 |
| ZG16 | NM_152338.3 | zymogen granule protein 16 | −5.90 | 0.01116 |
| DEFA6 | NM_001926.3 | defensin, alpha 6, Paneth cell-specific | −5.89 | 0.01083 |
| FCGBP | NM_003890.2 | Fc fragment of IgG binding protein | −4.68 | 0.00706 |
| RETNLB | NM_032579.2 | resistin like beta | −4.33 | 0.00060 |
| ITLN2 | NM_080878.2 | intelectin 2 | −4.26 | 0.00391 |
| FAM55D | NM_001077639.1 | neurexophilin and PC-esterase domain family, member 4 | −4.12 | 0.00392 |
| HEPACAM2 | NM_001039372.2 | HEPACAM family member 2 | −4.05 | 0.00131 |
| B3GNT6 | NM_138706.4 | UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase 6 | −4.03 | 0.00177 |
| BEST2 | NM_017682.2 | bestrophin 2 | −3.86 | 0.00099 |
| REG4 | NM_001159352.1 | regenerating islet-derived family member 4 | −3.81 | 0.04009 |
| UGT2B17 | NM_001077.3 | UDP glucuronosyltransferase 2 family, polypeptide B17 | −3.71 | 0.00601 |
| SPINK4 | NM_014471.1 | serine peptidase inhibitor, Kazal type 4 | −3.68 | 0.03954 |
| DPP10-AS1 | NR_036580.1 | DPP10 antisense RNA 1 | −3.67 | 0.01926 |
| SLC4A4 | NM_001098484.2 | solute carrier family 4 | −3.63 | 0.01004 |
| UGT2B15 | NM_001076.3 | UDP glucuronosyltransferase 2 family polypeptide B15 | −3.56 | 0.00500 |
| KLK12 | NM_019598.2 | kallikrein-related peptidase 12 | −3.56 | 0.00633 |
| L1TD1 | NM_001164835.1 | LINE-1 type transposase domain containing 1 | −3.52 | 0.02738 |
| ADH1A | NM_000667.3 | alcohol dehydrogenase 1A (class I) alpha polypeptide | −3.48 | 0.00852 |
| PLA2G2A | NM_000300.3 | phospholipase A2, group IIA (platelets synovial fluid) | −3.43 | 0.01981 |
| VSIG2 | NM_014312.3 | V-set and immunoglobulin domain containing 2 | −3.43 | 0.00681 |
| ADH1C | NM_000669.4 | alcohol dehydrogenase 1C (class I), gamma polypeptide | −3.39 | 0.00776 |
| MB | NM_005368.2 | myoglobin | −3.25 | 0.00144 |
aFC (log2 fold change); bFDR (false discovery rate). The genes in bold were selected for validation by RT-qPCR