Table 2. Upstream regulators identified by pathway analysis for GRIP and superenhancers using the top 500 genes for each cell line.
| GRIP | Superenhancers | |||||
|---|---|---|---|---|---|---|
| Driver Gene | p value | % insertion | Driver Gene | p value | % insertion | |
| MCF7 | KMT2A# | 1.69E-11 | 0.0173 | WISP2 | 4.94E-10 | 0 |
| COMMD3-BMI1 | 2.33E-09 | 0.0173* | β-estradiol | 1.63E-09 | N/A | |
| ATF4 | 1.48E-08 | 0.0173** | ESR1# | 2.01E-09 | 0 | |
| PHC2 | 5.19E-08 | 0.0000 | estrogen | 6.90E-07 | N/A | |
| MYC# | 8.04E-07 | 0.0087* | RNF31 | 1.13E-06 | 0 | |
| CD34 | CSF3 | 5.16E-09 | 0 | CD3 | 1.22E-10 | 0.0051 |
| HOXA9# | 6.54E-09 | 0.0102*** | TNF | 3.57E-10 | 0.0000 | |
| IL15 | 7.23E-08 | 0 | IL15 | 1.02E-08 | 0.0000 | |
| androgen | 1.36E-07 | N/A | TCR | 2.50E-08 | 0.0051 | |
| TGFB1 | 2.02E-07 | 0.0102* | GATA2# | 2.68E-08 | 0.0102*** | |
| K562 | GATA1# | 8.29E-07 | 0.0334*** | TP53# | 6.02E-14 | 0.00222 |
| IKZF1# | 1.76E-06 | 0.0393*** | ATF4 | 6.00E-13 | 0.00633 | |
| TP53# | 5.93E-06 | 0.0022 | KITLG | 2.44E-12 | 0 | |
| NR3C1 | 1.09E-05 | 0.0041 | IL3 | 5.11E-12 | 0 | |
| FLT1 | 1.38E-05 | 0.0277*** | EIF2AK3 | 3.20E-11 | 0.00158 | |
| HepG2 | TGFB1 | 8.60E-13 | 0.00765 | TP53# | 2.02E-11 | 0.00191 |
| β-estradiol | 7.28E-11 | N/A | MYC# | 3.62E-11 | 0.00139 | |
| NR1I2 | 4.69E-09 | 0.0106*** | SOX2# | 4.67E-10 | 0.00031 | |
| TP53# | 5.74E-09 | 0.00191 | HNF4A | 5.20E-09 | 0.0417*** | |
| FN1 | 1.37E-07 | 0.0160*** | NRG1# | 3.65E-08 | 0.00311 | |
Hash symbol (#) represents a known cancer driver gene, while asterisks represent statistical significance with * being p<0.05, ** p<0.01 and *** p<0.001.