Nucleolar RNA Processing
Gene co-expression module in Tuft cells
| Category | RNA processing & translation |
|---|---|
| Genes | 0 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 7 of 9 genes have a known function matching the annotation |
Why this annotation
Hub genes SET (chromatin remodeling, PP2A inhibitor, nucleosome assembly), HMGN1 (high mobility group nucleosome-binding protein), NCL (nucleolin — nucleolar RNA binding, ribosome biogenesis), and SERBP1 (SERPINE1 mRNA binding protein, also involved in rRNA processing) all point to nucleolar/chromatin activity. PPIA (cyclophilin A) is a peptidyl-prolyl isomerase/chaperone. PEBP1 (RKIP) inhibits Raf/MAPK and NF-κB. SOD1 is a superoxide dismutase. SLC25A3 is a mitochondrial phosphate carrier. CALM1 (calmodulin) is a calcium sensor. The dominant program is nucleolar RNA processing and chromatin organization, consistent with active ribosome biogenesis in progenitor cells. Significant negative delta_inflammation_UC and positive delta_treatment_CD suggest this program is suppressed by inflammation and restored by treatment.
Genes
Most correlated modules
- Pre-tuft Metabolic Identity · correlation 0.97
- Mitochondrial Proteostasis · correlation 0.96
- OxPhos Pre-tuft · correlation 0.96
- Electron Transport Chain · correlation 0.95
- Oxidative Stress Response · correlation 0.94
- Sulfur Redox Detox · correlation 0.92
- Respiratory Chain Complex I · correlation 0.92
- Mitochondrial OxPhos/TCA · correlation 0.91
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.