Chromatin Regulatory Response
Gene co-expression module in Colonocytes
| Category | chromatin regulation & transcription |
|---|---|
| Genes | 0 |
| Annotation certainty | 2 of 5 |
| Annotation consistency | 9 of 21 genes have a known function matching the annotation |
Why this annotation
This module has moderate coherence and is strongly upregulated in UC inflammation (delta_inflammation_UC=0.784). The hub genes include IQGAP1 (scaffold for Rho GTPases, cytoskeletal/signaling), TMF1 (Golgi-associated), GOLGA4 (Golgi), CSNK1A1 (casein kinase 1, Wnt/NF-kB signaling), PPP2R2A (PP2A regulatory subunit), SMARCA4 (SWI/SNF chromatin remodeling), GATAD2A (NuRD complex), RCOR1 (CoREST corepressor), VCL (vinculin, focal adhesion), EFNB2 (ephrin-B2, cell-cell signaling), TANK (TRAF-associated NF-kB activator), SGMS2 (sphingomyelin synthase), IL6ST (gp130, IL-6 signaling co-receptor), DICER1 (miRNA processing). The module is a mixed bag of chromatin regulators, Golgi/vesicle trafficking, cytoskeletal, and signaling genes. The inflammation association and presence of TANK, IL6ST, CSNK1A1, PPP2R2A, SMARCA4, GATAD2A, RCOR1 suggests a broad regulatory/chromatin remodeling response in inflamed colonocytes. The moderate coherence reflects the mixed nature. The dominant theme across hub genes is large regulatory scaffold proteins involved in chromatin remodeling and transcriptional regulation, consistent with a broad chromatin/transcriptional regulatory program activated in inflammation. SMARCA4, GATAD2A, RCOR1, ETV3, DICER1 all point to chromatin/epigenetic regulation.
Genes
Most correlated modules
- Focal Adhesion Migration · correlation 0.89
- Epigenetic Remodeling Inflammation · correlation 0.87
- Unfolded Protein Response · correlation 0.87
- Ubiquitin Signaling Response · correlation 0.86
- Actin Cytoskeletal Regulation · correlation 0.86
- ER-Golgi Trafficking · correlation 0.85
- Hypoxic Oxidative Stress · correlation 0.82
- Integrin Adhesion Signaling · correlation 0.82
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.