TABLE 5.
Top hub genes identified in both STRING networks derived from the “dynamic” (n = 147) and “static” (n = 57) tension DEG lists. Different score measures were calculated by cytoHubba (Chin et al., 2014). The total score cut-off was set to ≥ 2*mean total score of each network being 361511.0 for the “dynamic” network and 1209.0 for the “static” network. In both lists the hub genes were sorted in descending order according to the total score. These hub genes were colored red in Figure 5.
| Gene list | Gene | MCODE cluster # | Local-based methods | Global-based methods | Total score (SUMscore) | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| MCC | DMNC | MNC | Degree | EPC | BottleNeck | EcCentricity | Closeness | Radiality | Betweenness | Stress | ||||
| Dynamic | IL6 | 1 | 4949248 | 0.44127 | 43 | 43 | 55.7020 | 5 | 0.22959 | 84.50000 | 5.67469 | 2127.04962 | 18,402 | 4970014.6 |
| CXCL8 | 2 | 4946706 | 0.54262 | 33 | 33 | 54.6030 | 1 | 0.22959 | 76.00000 | 5.47594 | 1435.65143 | 12,426 | 4960771.5 | |
| IL1B | 2 | 4880486 | 0.43410 | 36 | 36 | 54.2840 | 8 | 0.22959 | 77.91667 | 5.48964 | 1563.68358 | 12,042 | 4894310.0 | |
| TNF | 1 | 4859699 | 0.53877 | 29 | 30 | 53.6020 | 7 | 0.22959 | 74.83333 | 5.44852 | 757.28180 | 5478 | 4866134.9 | |
| CCL2 | 2 | 4704534 | 0.61776 | 25 | 25 | 52.0030 | 5 | 0.22959 | 71.41667 | 5.37313 | 192.83836 | 1884 | 4706795.5 | |
| IL10 | 1 | 4544888 | 0.61015 | 23 | 23 | 51.3110 | 2 | 0.22959 | 69.33333 | 5.31145 | 221.65300 | 2056 | 4547340.4 | |
| VEGFA | 2 | 4450715 | 0.40116 | 43 | 44 | 55.6160 | 30 | 0.22959 | 85.33333 | 5.69525 | 2581.50569 | 18,952 | 4472512.8 | |
| HMOX1 | 1 | 4357032 | 0.72691 | 16 | 16 | 47.4180 | 1 | 0.22959 | 65.16667 | 5.22921 | 61.59565 | 766 | 4358011.4 | |
| JUN | 1 | 4269668 | 0.63037 | 25 | 27 | 53.6160 | 3 | 0.22959 | 73.58333 | 5.44167 | 750.77011 | 5418 | 4276025.3 | |
| PTGS2 | 2 | 4228086 | 0.63871 | 21 | 21 | 51.0090 | 5 | 0.22959 | 68.91667 | 5.32516 | 421.56904 | 3358 | 4232038.7 | |
| TLR4 | 1 | 4198470 | 0.67581 | 18 | 18 | 48.3580 | 1 | 0.22959 | 67.25000 | 5.29089 | 124.59022 | 1334 | 4200087.4 | |
| Static | IL6 | 2 | 6008 | 0.44392 | 22 | 22 | 25.7170 | 7 | 0.23246 | 35.08333 | 5.88293 | 263.47537 | 1206 | 7595.8 |
| IGF1 | 2 | 6088 | 0.49129 | 20 | 20 | 25.6770 | 8 | 0.23246 | 33.91667 | 5.82928 | 174.76358 | 868 | 7244.9 | |
| TP53 | 1 | 2970 | 0.32783 | 21 | 23 | 25.2950 | 21 | 0.23246 | 36.16667 | 5.97233 | 914.98502 | 2848 | 6866.0 | |
| TNF | 1 | 4527 | 0.46144 | 17 | 18 | 24.7640 | 8 | 0.23246 | 32.83333 | 5.79352 | 304.73126 | 1120 | 6058.8 | |
| MMP2 | 2 | 1598 | 0.54053 | 14 | 16 | 24.5630 | 10 | 0.23246 | 32.75000 | 5.86505 | 581.49581 | 2310 | 4593.4 | |
| JUN | 1 | 3792 | 0.61467 | 12 | 12 | 23.5690 | 1 | 0.18596 | 28.90000 | 5.52530 | 22.03107 | 146 | 4043.8 | |
| FOS | 1 | 3720 | 0.69834 | 10 | 10 | 23.1720 | 1 | 0.18596 | 27.90000 | 5.48954 | 6.50124 | 60 | 3864.9 | |
| IL1B | 2 | 2246 | 0.48461 | 16 | 16 | 24.8150 | 1 | 0.23246 | 31.41667 | 5.70412 | 109.01102 | 574 | 3024.7 | |
| MMP1 | 2 | 2286 | 0.60003 | 12 | 12 | 23.9330 | 1 | 0.23246 | 29.58333 | 5.65047 | 31.57875 | 252 | 2654.6 | |
| SPP1 | 1 | 1134 | 0.49815 | 13 | 15 | 23.9390 | 4 | 0.23246 | 31.75000 | 5.79352 | 296.75685 | 1106 | 2631.0 | |
Abbreviations: MCC, Maximal Clique Centrality; DMNC, Density of Maximum Neighborhood Component; MNC, Maximum Neighborhood Component; EPC, Edge Percolated Component.