Splicing & Transcription
Gene co-expression module in Innate lymphoid cells
| Category | RNA processing & translation |
|---|---|
| Genes | 21 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 10 of 21 genes have a known function matching the annotation |
Why this annotation
Hub genes include PRRC2C (RNA-binding protein), ACTR2 (Arp2, actin-related protein, branched actin nucleation), MTPN (myotrophin, actin capping/NF-kB), PHF20L1 (PHD finger protein, chromatin), RAB11FIP1 (Rab11 family interacting protein, vesicle recycling), BDP1 (TFIIIB subunit, RNA Pol III transcription), ZNF207 (zinc finger, chromatin/splicing), RBM5 (RNA-binding motif protein 5, splicing/apoptosis), SYNCRIP (hnRNP Q, RNA processing), DHX36 (DEAD-box helicase, G-quadruplex resolution), SRRM1 (serine/arginine repetitive matrix, splicing), PRPF40A (pre-mRNA processing factor 40A, splicing), CDC5L (cell division cycle 5-like, splicing/DNA repair), TOP1 (topoisomerase I, DNA/RNA processing), FXR1 (fragile X-related, RNA binding), YY1 (transcription factor), TRIM44 (ubiquitin-binding), CYLD (deubiquitinase, NF-kB regulation). The module is weak in coherence with predominantly weak membership. The dominant theme spans RNA processing/splicing (PRRC2C, RBM5, SYNCRIP, SRRM1, PRPF40A, CDC5L, FXR1, DHX36) and transcription regulation (BDP1, YY1, PHF20L1). ACTR2 and RAB11FIP1 are outliers. Neighbor context supports RNA processing classification. The significant delta_inflammation signal may reflect transcriptional upregulation during gut inflammation.
Genes
ACTR2, BDP1, CDC5L, CYLD, DHX36, FXR1, GPATCH2, MTPN, PHF20L1, PLPBP, PRPF40A, PRRC2C, RAB11FIP1, RBM5, SRRM1, SYNCRIP, TM9SF3, TOP1, TRIM44, YY1, ZNF207
Most correlated modules
- Golgi RNA Processing · correlation 0.96
- RNA Chromatin Regulation · correlation 0.93
- Pre-mRNA Splicing · correlation 0.92
- RNA Processing & Proteostasis · correlation 0.92
- Endosomal Trafficking · correlation 0.91
- RNA-binding & Splicing · correlation 0.90
- Innate Immune Activation · correlation 0.89
- Cell Cycle Entry · 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.