Table 3.
Critical hub genes
| Wild Type Group Networks | Same Gene in the Knockout Group Networks | |||||
|---|---|---|---|---|---|---|
| Hf Gene | Median (Range) | Rank | Pre → Post | Pre → Post | Rank | Median (Range) |
| Smad8 | 0 (8.66) | Dn 5 | Hf (7) [22.5] → Hc (2) | P → N | Dn 1 | −3.64 (5.62) |
| Cebpa | 0.6 (0.94) | -- | Hf (3) [11] → N | Hc (5) → Hc (8) | -- | 1.43 (2.83) |
| PTHrP | 2.52 (8.66) | Up 4 | Hf (5) [8.5] → Hc (5) | Hc (4) → Hf (2) [9] | -- | 0.02 (6.72) |
| Ctsk | 0.32 (3.92) | -- | Hf (2) [0.5] → Hc (7) | P → N | Dn 5 | −0.60 (2.77) |
| Tnn | 1.78 (4.22) | -- | Hc (7) → Hf (6) [16] | P → N | -- | 0.85 (3.32) |
| Eng1 | 1.55 (1.60) | -- | N →Hf (3) [5.5] | Hc (4) → Hf (10) [17] | Up 5 | 2.15 (2.40) |
| Same Gene in the Wild Type Group Networks | Knockout Group Networks | |||||
| Hf Gene | Median (Range) | Rank | Pre → Post | Pre → Post | Rank | Median (Range) |
| MMP9 | 0.20 (1.82) | -- | N → P | Hf (7) [22.5] → N | -- | −0.54 (2.94) |
| Dkk1 | 0.93 (5.78) | -- | Hc (7) → Hc (4) | Hf (2) [16] → N | -- | −0.33 (5.23) |
| Sost | −0.48 (5.02) | Dn 2 | Hc (6) → Hc (4) | Hf (2) [8.5] → Hc (6) | Dn 4 | −3.27 (8.88) |
| Bmp3 | 0.10 (3.44) | -- | Hc (7) → Hc (4) | Hf (2) [0.5] → Hc (10) | -- | 0.89 (3.10) |
| Notch2 | 0.31 (1.55) | -- | Hc (5) → N | Hc (5) → Hf (2) [24] | -- | 0.79 (3.56) |
| Eng1 | 1.55 (1.60) | -- | N →Hf (3) [5.5] | Hc (4) → Hf (10) [17] | Up 5 | 2.15 (2.40) |
| Adipoq | −6.79 (6.13) | Dn 1 | P → Hc (3) | Hc (3) → Hf (3) [11.67] | Dn 3 | −1.92 (8.80) |
| PTHrP | 2.52 (8.66) | Up 4 | Hf (5) [8.5] → Hc(5) | Hc (4) → Hf (2) [9] | -- | 0.02 (6.72) |
Abbreviation used: Up, up-regulated; Dn, down-regulated; P, periphery gene; Hc (degree), redundant connecting hub (number of neighboring genes); Hf, non-redundant focal linking hub (number of neighboring genes)[estimated focality scores]; N, non-existent in networks.