Table 3.
Differential expression of ECM related genes in En/pNC and KEn/pNC
| Gene ID | Symbol | Log2FC (En/pNC) |
q-value | Log2FC (KEn/pNC) |
q-value |
|---|---|---|---|---|---|
| Collagens | |||||
| 428448 | COL6A6 | 2.72 | 2E-17 | 11.03 | 0 |
| 396292 | COL6A2 | 6.41 | 0 | 10.60 | 0 |
| 396000 | COL6A1 | 4.51 | 8E-137 | 7.71 | 1E-306 |
| 416696 | LOC416696 | 8.85 | 9E-29 | 7.14 | 4E-21 |
| 101747382 | LOC101747382 | 4.86 | 6E-120 | 7.04 | 2E-218 |
| 107056318 | LOC107056318 | 0.19 | 0.763 | -4.18 | 3E-11 |
| 421873 | COL19A1 | 0.16 | 0.7209 | −3.16 | 9E-14 |
| 101751793 | LOC101751793 | −1.79 | 5E-13 | −2.93 | 4E-29 |
| 422350 | COL4A6 | −0.11 | 0.5729 | −2.03 | 2E-32 |
| 422348 | COL4A5 | 0.00 | 0.9913 | −1.60 | 2E-21 |
| Glycoproteins | |||||
| 396387 | NTN3 | 1.75 | 4E-07 | 6.03 | 7E-127 |
| 421471 | VIT | 10.87 | 5E-30 | 5.67 | 2E-11 |
| 422905 | SPON2 | 3.62 | 4E-44 | 5.61 | 5E-96 |
| 424366 | OLFML2B | 5.59 | 0 | 5.41 | 0 |
| 414837 | THBS2 | 2.97 | 7E-99 | 4.69 | 3E-215 |
| 419031 | VWF | −2.75 | 8E-25 | −10.87 | 6E-102 |
| 395935 | VTN | −5.57 | 3E-35 | −5.70 | 4E-39 |
| 417180 | LAMC3 | −3.01 | 4E-67 | −5.70 | 2E-161 |
| 427850 | RELN | −2.02 | 5E-14 | −5.26 | 4E-53 |
| 395531 | NID1 | −1.49 | 1E-48 | −3.49 | 2E-212 |
| Proteoglycans | |||||
| 374039 | OGN | 6.04 | 2E-295 | 8.13 | 0 |
| 373995 | KERA | 4.86 | 1E-160 | 6.42 | 1E-242 |
| 107056545 | LOC107056545 | 4.55 | 1E-05 | 6.20 | 1E-08 |
| 417892 | DCN | 2.58 | 3E-33 | 4.25 | 4E-77 |
| 395798 | ACAN | 0.23 | 0.6479 | 3.46 | 5E-20 |
| 414143 | LEPREL1 | −3.90 | 7E-71 | −6.99 | 1E-128 |
| 396475 | HAPLN1 | −2.51 | 8E-18 | −6.31 | 1E-70 |
| 770863 | GPC3 | −1.29 | 3E-08 | −4.51 | 8E-64 |
| 419184 | SDC4 | 0.01 | 0.9846 | −2.37 | 2E-16 |
| Other ECM proteins | |||||
| 418637 | EGFL6 | 4.31 | 8E-96 | 8.18 | 3E-307 |
| 422535 | NPNT | 0.65 | 0.0021 | 6.25 | 1E-151 |
| 418125 | PTN | 4.32 | 2E-290 | 5.52 | 0 |
| 421461 | LTBP1 | 2.17 | 2E-76 | 3.21 | 3E-153 |
| 428888 | LTBP2 | 2.23 | 1E-66 | 2.82 | 7E-104 |
| 395912 | MGP | 0.69 | 0.0939 | −3.23 | 4E-10 |
| Enzymes and Regulators | |||||
| 395850 | MMP27 | 8.15 | 3E-158 | 9.07 | 8E-209 |
| 416291 | ADAMTS2 | 0.82 | 0.0511 | 7.57 | 1E-120 |
| 769222 | ADAMTS8 | 5.08 | 8E-271 | 4.54 | 8E-219 |
| 424447 | COLGALT2 | 2.36 | 3E-44 | 4.28 | 3E-131 |
| 427971 | ADAMTS5 | 5.14 | 1E-174 | 4.09 | 3E-112 |
| 422488 | CSGALNACT1 | −1.49 | 2E-08 | −3.95 | 1E-34 |
| 423834 | HPSE2 | −3.12 | 2E-19 | −1.42 | 2E-05 |
Data is arranged to show the top 5 upregulated and downregulated genes in each category. Bold values indicate differentially expressed genes between the two groups (abs(log2)≥1 and q < 0.05). Minus signs indicate downregulation. The individual TPM and standard deviations for the RNAseq replicates are listed in Table 12.