Table 1.
Characteristics of the normal co‐expression network (NCN), tumour co‐expression network (TCN) and differential co‐expression network (DCN)
| NCN | TCN | NCN∩TCN | NCN\TCN a | DCN | |
|---|---|---|---|---|---|
| No. of genes | 15 424 | 10 345 | 7726 | 7698 (49.91%) | 2074 |
| PCGs | 11 482 | 7640 | 5756 | 5726 (49.87%) | 1746 |
| lncRNAs | 3942 | 2705 | 1970 | 1972 (50.03%) | 328 |
| No. of edges | 3 236 238 | 587 517 | 345 016 | 2 891 267 (89.34%) | 3917 |
| PCG‐PCG | 2 030 506 (62.74%) | 254 673 (43.35%) | 147 452 (42.74%) | 1 883 054 (92.74%) | 3277 (83.66%) |
| PCG‐lncRNA | 1 001 184 (30.94%) | 240 326 (40.91%) | 139 705 (40.49%) | 861 479 (86.05%) | 618 (15.78%) |
| lncRNA‐lncRNA | 204 548 (6.32%) | 92 518 (15.75%) | 57 859 (16.77%) | 146 653 (71.70%) | 22 (0.56%) |
| Mean degree | 419.64 | 113.58 | 3.78 | ||
| Median degree | 152 | 17 | 1 | ||
| Maximum degree | 3160 | 1547 | 327 | ||
| Mean clustering coefficient | 0.4709 [0.027] b | 0.4600 [0.011] | 0.0275 [0.002] | ||
| Diameter of the network | 12 [3] | 20 [3] | 18 [12] | ||
| Mean shortest path length | 3.065 [1.973] | 3.912 [2.273] | 5.636 [5.841] |
a
Genes/edges in NCN but not TCN. The proportions in the column NCN\TCN were the percentages of the number of genes/edges in NCN\TCN to those in NCN.
b
Properties of degree‐preserving random networks.