Effector activation NFkB
Gene co-expression module in CD4⁺ T cells
| Category | TCR/AP1/NFKb pathway |
|---|---|
| Genes | 32 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 9 of 32 genes have a known function matching the annotation |
Why this annotation
Hub genes form a coherent TCR/NFkB-activation and Th17/AHR effector program: SMAD7 (TGF-beta feedback inhibitor strongly implicated in IBD), BHLHE40 (key Th17/Th1 effector TF), STAT4 (Th1/IL-12 signaling), AHR (Th17/IL22), NFKBIB (NFkB inhibitor), DUSP5 (MAPK feedback), and the activation/survival/metabolism genes MCL1, PFKFB3, PPIF. DUSP5/NFKBIB/SMAD7 are immediate downstream of TCR/cytokine activation. This is an activated effector CD4 T cell module with strong NFkB/AHR signaling, significantly increased in CD inflammation.
Genes
ADAM19, AHR, ARFGAP3, ATF5, BHLHE40, CGAS, DUSP5, ETF1, HIPK1, HNRNPUL1, IFFO2, KIF13B, MAP3K8, MCL1, MRPL10, NFKBIB, NUP62, PDE4A, PDE4D, PFKFB3, PPIF, RNF19B, SELENOS, SMAD7, SPTY2D1, STAT4, SYNGAP1, THBS1, TMED10, UBE2A, ZBTB43, ZNF267
Most correlated modules
- Gamma-delta T cell · correlation 0.67
- Cytokine receptor signaling · correlation 0.65
- Chemokine Migration · correlation 0.62
- Th17 lineage · correlation 0.61
- NF-kB Feedback Response · correlation 0.60
- Cell motility/adhesion · correlation 0.58
- Th17/MAIT type-17 · correlation 0.58
Module annotations were drafted by a large language model from the module's genes, then reviewed and approved by a domain expert. See sources & licences.