Table 4.
Upstream regulators determined by IPA to be activated or inhibited by TNFα (± FSH) treatment of cultured granulosa cells†
| Gene symbol or molecule | Full gene name | Actual fold change | Activation z-score | P value of overlap |
|---|---|---|---|---|
| TNF |
Tumour necrosis factor |
|
6.52 |
7.03E-39 |
| IFNG |
Interferon gamma |
|
6.75 |
6.34E-35 |
| IL1B |
Interleukin 1, beta |
|
4.76 |
9.88E-28 |
| Tretinoin |
All-trans retinoic acid |
|
4.12 |
7.15E-25 |
| IFNB1 |
Interferon beta 1 |
|
3.66 |
8.03E-20 |
| OSM |
Oncostatin M |
|
4.29 |
5.93E-16 |
| CD40 |
CD40 molecule, TNF receptor superfamily member 5 |
10.1 |
3.25 |
2.36E-13 |
| TGM2 |
Transglutaminase 2 |
31.0 |
3.34 |
1.05E-12 |
| FN1 |
Fibronectin 1 |
3.3 |
3.05 |
7.85E-11 |
| ESR1 |
Estrogen Receptor 1 |
|
3.07 |
1.99E-07 |
| HTT |
Huntingtin |
|
3.32 |
8.34E-07 |
| IL1RN | Interleukin 1 receptor antagonist | 5.9 | −3.60 | 8.11E-19 |
†Genes >3-fold differentially regulated between TNFα (± FSH) and control (± FSH) were used for this analysis.
The P value of overlap is the calculated statistical significance of overlap between genes from the dataset and genes that are known to be regulated by the upstream regulator using Fisher’s exact test.
The bias-corrected z-score is used to infer the activation states of transcriptional regulators. It is calculated from the proportions of genes which are differentially regulated in an expected direction based on the known interactions between the regulator and the genes present in the Ingenuity database. Those genes with a z-score greater or less than two are considered to be either activated or inhibited respectively.