Replication Stress Response
Gene co-expression module in Intestinal stem cells and transit amplifying cells
| Category | Cell cycle |
|---|---|
| Genes | 0 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 8 of 10 genes have a known function matching the annotation |
Why this annotation
Hub genes include CHTF18 (RFC-like complex, sister chromatid cohesion/replication), FANCA (Fanconi anemia complementation group A, DNA interstrand crosslink repair), PIF1 (DNA helicase, replication fork maintenance), RECQL4 (RecQ helicase, replication initiation and repair), GEN1 (Holliday junction resolvase), KIF18A (kinesin, chromosome positioning/spindle checkpoint), CEP295 (centriole elongation), ARHGAP11B (RhoGAP, basal progenitor expansion), WDR90 (centriole), C21orf58 (uncharacterized, top hub). The module is strongly up in CD inflammation (delta_inflammation_CD = 0.576, sig.) and down with CD treatment, which is unusual for a simple cell cycle module. The Fanconi anemia/DNA repair genes (FANCA, RECQL4, GEN1, CHTF18, PIF1) dominate alongside centriole genes. This pattern — DNA repair helicases, Fanconi pathway, Holliday junction resolution — points to a replication stress/DNA damage response program. The strong induction in CD inflammation may reflect genotoxic stress in inflamed epithelium. Neighbor context: adjacent to M82 (FANCD2-centered DNA repair) and M28 (G2/M), supporting a DNA damage/replication stress identity rather than pure mitosis.
Genes
Most correlated modules
- Centrosome Biogenesis · correlation 0.89
- Mitotic Spindle · correlation 0.70
- DNA Replication/Repair · correlation 0.70
- DNA Repair S-phase · correlation 0.69
- Mitotic Spindle · correlation 0.69
- G2/M Mitosis · correlation 0.60
- Splicing Regulation · correlation 0.56
- Replication Initiation · correlation 0.53
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.