Lysosomal Stress Response
Gene co-expression module in Fibroblasts
| Category | Stress |
|---|---|
| Genes | 12 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 8 of 12 genes have a known function matching the annotation |
Why this annotation
CTSB (cathepsin B) is a lysosomal cysteine protease central to autophagy and lysosomal degradation. ATP6V0B encodes a subunit of the vacuolar H+-ATPase required for lysosomal acidification. SURF4 is an ER-Golgi cargo receptor. FAM20C is a Golgi-localized kinase that phosphorylates secretory pathway proteins. PLIN3 (perilipin-3) coats lipid droplets and is involved in lipophagy. MIF (macrophage migration inhibitory factor) is a pro-inflammatory cytokine/stress mediator upregulated in IBD. GSTO1 is a glutathione S-transferase involved in oxidative stress response. IKBIP is an IKK-interacting protein modulating NF-κB. ARPC1B is Arp2/3 actin nucleation. PDLIM4 is a PDZ-LIM actin-associated protein. PKM (pyruvate kinase M) drives glycolysis. TMEM208 is an ER membrane protein. The combination of lysosomal (CTSB, ATP6V0B), lipid droplet (PLIN3), and stress/inflammatory (MIF, GSTO1, IKBIP) genes with the highest inflammation delta in the batch (0.435 UC) suggests a lysosomal/stress response program activated in inflamed fibroblasts. This module is the most 'inflammatory' neighbor, consistent with its MIF and IKBIP content.
Genes
ARPC1B, ATP6V0B, CTSB, FAM20C, GSTO1, IKBIP, MIF, PDLIM4, PKM, PLIN3, SURF4, TMEM208
Most correlated modules
- ER Protein Processing · correlation 0.96
- Proteasome Assembly · correlation 0.95
- Proteasome Biogenesis · correlation 0.94
- ER-Golgi Trafficking · correlation 0.92
- ER Secretory Processing · correlation 0.89
- Inflammatory Fibroblast Activation · correlation 0.88
- Inflammatory ECM Remodeling · correlation 0.88
- Hypoxia Response · correlation 0.87
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.