Table 1.
List of genes that are permanently changed by cell culture. The Table shows the genes that are differentially expressed (adjusted P-value < 0.005) between XG and CL and between XG and CLX, but not between CL and CLX. Fold-change (logarithmic scale on base 2) are shown for each comparison.
| Fold Change (Log2) | Adjusted P value | |||||||
|---|---|---|---|---|---|---|---|---|
| Entrez ID | Symbol | Gene Name | XGvCL | CLvsCLX | XGvsCLX | XGvsCL | CLvsCLX | XGvsCLX |
| 2261 | FGFR3 | fibroblast growth factor receptor 3 | 5.65 | −0.4 | 5.25 | 0 | 0.91 | 0 |
| 94235 | GNG8 | guanine nucleotide binding protein (G protein), gamma 8 | 4.94 | −0.04 | 4.9 | 0 | 1 | 0 |
| 3306 | HSPA2 | heat shock 70kDa protein 2 | 4.84 | −0.7 | 4.14 | 0.01 | 0.9 | 0.02 |
| 283120 | H19 | H19, imprinted maternally expressed transcript | 4.96 | −1.54 | 3.56 | 0 | 0.52 | 0.02 |
| 283131 | TncRNA | trophoblast-derived noncoding RNA | 4.11 | −0.17 | 4.39 | 0 | 0.84 | 0 |
| 64065 | PERP | PERP, TP53 apoptosis effector | 4.43 | −0.98 | 3.9 | 0.02 | 0.84 | 0.03 |
| 4821 | NKX2-2 | NK2 homeobox 2 | 4.17 | −0.27 | 3.91 | 0.03 | 0.98 | 0.03 |
| 999 | CDH1 | cadherin 1, type 1, E-cadherin (epithelial) | 4.09 | −0.31 | 3.79 | 0.04 | 0.97 | 0.05 |
| 55466 | DNAJA4 | DnaJ (Hsp40) homolog, subfamily A, member 4 | 4.14 | −0.31 | 3.74 | 0 | 0.25 | 0 |
| 4070 | TACSTD2 | tumor-associated calcium signal transducer 2 | 3.96 | −0.22 | 3.67 | 0.01 | 0.4 | 0.02 |
| 7852 | CXCR4 | chemokine (C-X-C motif) receptor 4 | 4.22 | −1.09 | 3.38 | 0 | 0.62 | 0.01 |
| 1299 | COL9A3 | collagen, type IX, alpha 3 | 3.71 | 0.12 | 3.83 | 0 | 0.98 | 0 |
| 57007 | CXCR7 | chemokine (C-X-C motif) receptor 7 | 4.89 | −0.25 | 2.64 | 0 | 0.53 | 0 |
| 6662 | SOX9 | SRY (sex determining region Y)-box 9 | 3.74 | −0.29 | 3.54 | 0.03 | 0.97 | 0.03 |
| 54492 | LOC54492 | hypothetical LOC54492 | 3.82 | −0.38 | 3.44 | 0.02 | 0.95 | 0.03 |
| 2820 | GPD2 | glycerol-3-phosphate dehydrogenase 2 (mitochondrial) | 5.5 | −0.5 | 1.75 | 0 | 0.92 | 0 |
| 164633 | CABP7 | calcium binding protein 7 | 3.47 | 0.17 | 3.64 | 0.02 | 0.98 | 0.02 |
| 219844 | HYLS1 | hydrolethalus syndrome 1 | 3.66 | −0.24 | 3.42 | 0.01 | 0.97 | 0.02 |
| 3481 | IGF2 | insulin-like growth factor 2 (somatomedin A) | 2.54 | −0.26 | 4.44 | 0.01 | 0.45 | 0.02 |
| 5349 | FXYD3 | FXYD domain containing ion transport regulator 3 | 3.58 | −0.38 | 3.28 | 0.02 | 0.85 | 0.03 |
| 4246 | SCGB2A1 | secretoglobin, family 2A, member 1 | 3.55 | −0.28 | 3.28 | 0.01 | 0.96 | 0.01 |
| 5617 | PRL | prolactin | 4.06 | −1.32 | 2.74 | 0.01 | 0.59 | 0.04 |
| 3963 | LGALS7 | lectin, galactoside-binding, soluble, 7 (galectin 7) | 3.23 | 0.28 | 3.51 | 0.05 | 0.97 | 0.03 |
| 25878 | MXRA5 | matrix-remodelling associated 5 | 3.3 | 0.05 | 3.35 | 0 | 0.99 | 0 |
| 10653 | SPINT2 | serine peptidase inhibitor, Kunitz type, 2 | 3.46 | −0.36 | 3.1 | 0.03 | 0.96 | 0.04 |
| 2977 | GUCY1A2 | guanylate cyclase 1, soluble, alpha 2 | −2.07 | 0.26 | −1.81 | 0.01 | 0.92 | 0.02 |
| 255231 | MCOLN2 | mucolipin 2 | −1.6 | −0.7 | −2.31 | 0.03 | 0.72 | 0.02 |
| 8715 | NOL4 | nucleolar protein 4 | −2.19 | 0.39 | −1.8 | 0.01 | 0.87 | 0.03 |
| 3709 | ITPR2 | inositol 1,4,5-triphosphate receptor, type 2 | −1.87 | −0.84 | −2.11 | 0.01 | 0.53 | 0 |
| 11001 | SLC27A2 | solute carrier family 27 (fatty acid transporter), member 2 | −1.84 | −0.33 | −2.17 | 0.04 | 0.91 | 0.02 |
| 54530 | C1orf218 | chromosome 1 open reading frame 218 | −2.26 | 0.42 | −1.84 | 0.01 | 0.87 | 0.04 |
| 6507 | SLC1A3 | (glial high affinity glutamate transporter), member 3 | −1.89 | −0.35 | −2.25 | 0.03 | 0.62 | 0.01 |
| 5028 | P2RY1 | purinergic receptor P2Y, G-protein coupled, 1 | −1.35 | 0.85 | −2.8 | 0.05 | 0.44 | 0.02 |
| 7325 | UBE2E2 | ubiquitin-conjugating enzyme E2E 2 | −2.25 | −0.76 | −1.91 | 0.02 | 0.51 | 0.03 |
| 169200 | TMEM64 | transmembrane protein 64 | −2.22 | −0.25 | −2.03 | 0.01 | 0.38 | 0.04 |
| 5308 | PITX2 | paired-like homeodomain 2 | −2.16 | 0.06 | −2.1 | 0.02 | 0.99 | 0.03 |
| 51678 | MPP6 | membrane protein, palmitoylated 6 | −2.18 | −0.05 | −2.22 | 0.02 | 0.99 | 0.02 |
| 1491 | CTH | cystathionase (cystathionine gamma-lyase) | −2.54 | 1.24 | −1.86 | 0 | 0.25 | 0.03 |
| 79071 | ELOVL6 | ELOVL family member 6 | −2.54 | 0.49 | −2.05 | 0.01 | 0.85 | 0.03 |
| 153 | ADRB1 | adrenergic, beta-1-, receptor | −2.34 | 0.14 | −2.36 | 0.02 | 0.74 | 0.02 |
| 401097 | LOC401097 | Similar to LOC166075 | −2.42 | −0.29 | −2.71 | 0.04 | 0.95 | 0.02 |
| 80144 | FRAS1 | Fraser syndrome 1 | −2.33 | −0.52 | −2.82 | 0.03 | 0.57 | 0.01 |
| 594855 | CPLX3 | complexin 3 | −2.89 | 1.08 | −2.26 | 0.01 | 0.74 | 0.03 |
| 3049 | HBQ1 | hemoglobin, theta 1 | −2.28 | −0.6 | −2.88 | 0.03 | 0.81 | 0.01 |
| 54941 | RNF125 | ring finger protein 125 | −2.35 | −0.47 | −2.82 | 0.01 | 0.82 | 0 |
| 6096 | RORB | RAR-related orphan receptor B | −2.65 | 0.8 | −2.57 | 0.01 | 0.45 | 0.01 |
| 285368 | PRRT3 | proline-rich transmembrane protein 3 | −2.91 | 0.54 | −2.37 | 0.01 | 0.87 | 0.04 |
| 84864 | MINA | MYC induced nuclear antigen | −2.69 | 0.55 | −2.68 | 0.04 | 0.85 | 0.04 |
| 29953 | TRHDE | thyrotropin-releasing hormone degrading enzyme | −3.05 | 0.4 | −2.64 | 0 | 0.86 | 0 |
| 8835 | SOCS2 | suppressor of cytokine signaling 2 | −3.82 | 1.16 | −2.66 | 0 | 0.55 | 0.02 |