Table 2.
Top 30 Overconnected Objects
| Object Type | Network Object Name | Actual | R | Expected | Ratio | p Value | z-Score |
|---|---|---|---|---|---|---|---|
| Transcription factors | YY1 | 255 | 2891 | 113.7 | 2.242 | 3.689E-37 | 14.37 |
| Other | ELAVL1 (HuR) | 205 | 2042 | 80.32 | 2.552 | 4.018E-37 | 14.81 |
| Other | SUMO-2 | 145 | 1339 | 52.67 | 2.753 | 2.881E-29 | 13.34 |
| Other | SUMO-1 | 125 | 1102 | 43.35 | 2.884 | 4.777E-27 | 12.94 |
| Transcription factors | CREB1 | 352 | 5302 | 208.5 | 1.688 | 5.774E-27 | 11.41 |
| Transcription factors | c-Myc | 227 | 2941 | 115.7 | 1.962 | 2.056E-24 | 11.24 |
| Enzymes | Sirtuin7 | 87 | 661 | 26 | 3.346 | 2.851E-23 | 12.37 |
| Other | 14-3-3 zeta/delta | 102 | 984 | 38.7 | 2.635 | 2.901E-19 | 10.59 |
| Transcription factors | p53 | 141 | 1774 | 69.78 | 2.021 | 5.539E-16 | 9.022 |
| Other | Cullin 3 | 97 | 1095 | 43.07 | 2.252 | 5.824E-14 | 8.572 |
| Enzymes | E2I | 49 | 380 | 14.95 | 3.278 | 2.913E-13 | 9.055 |
| Other | CNOT3 | 101 | 1209 | 47.55 | 2.124 | 6.369E-13 | 8.104 |
| Other | SF3A2 | 27 | 128 | 5.035 | 5.363 | 6.837E-13 | 10.01 |
| Other | miR-155-5p | 40 | 274 | 10.78 | 3.711 | 8.527E-13 | 9.131 |
| Kinases | PLK1 | 92 | 1063 | 41.81 | 2.2 | 1.031E-12 | 8.091 |
| Transcription factors | TARDBP | 54 | 463 | 18.21 | 2.965 | 1.071E-12 | 8.636 |
| Other | FUS | 37 | 240 | 9.44 | 3.919 | 1.149E-12 | 9.195 |
| Other | p15(PAF) | 76 | 808 | 31.78 | 2.391 | 1.99E-12 | 8.134 |
| Other | SUMO-3 | 57 | 515 | 20.26 | 2.814 | 2.193E-12 | 8.416 |
| Other | 14-3-3 gamma | 57 | 523 | 20.57 | 2.771 | 4.113E-12 | 8.281 |
| Transcription factors | Oct-3/4 | 114 | 1489 | 58.57 | 1.946 | 5.58E-12 | 7.619 |
| Other | U2AF-65 | 27 | 146 | 5.743 | 4.702 | 1.792E-11 | 9.076 |
| Transcription factors | ESR1 (nuclear) | 137 | 1966 | 77.33 | 1.772 | 2.851E-11 | 7.21 |
| Other | TIF1-beta | 122 | 1681 | 66.12 | 1.845 | 3.139E-11 | 7.258 |
| Transcription factors | YB-1 | 46 | 393 | 15.46 | 2.976 | 4.601E-11 | 7.988 |
| Other | miR-93-5p | 24 | 122 | 4.799 | 5.001 | 6.132E-11 | 8.964 |
| Kinases | CDK9 | 40 | 314 | 12.35 | 3.239 | 6.559E-11 | 8.077 |
| Proteases | Caspase-3 | 57 | 561 | 22.07 | 2.583 | 6.703E-11 | 7.673 |
| Other | hnRNP A1 | 44 | 373 | 14.67 | 2.999 | 9.442E-11 | 7.87 |
| Other | TIP120A | 61 | 634 | 24.94 | 2.446 | 1.319E-10 | 7.462 |
There were 990 objects identified in the NHUC-BMI1 data set that were eligible for this analysis which were analyzed based upon the 25,169 gene-based objects present in the complete database. Key: Actual is the number of network objects in the BMI1-NHUC data set which interact with the chosen object, R = number of objects in the complete Metacore database which interact with the chosen object, Expected is mean value for hypergeometric distribution (n*R/N), Ratio is connectivity ratio (actual/expected), P value is the probability to have the given value of actual or higher (or lower for negative z-score), z-score is ((actual − expected)/sqrt(variance)).