RNA Processing & Proteostasis
Gene co-expression module in Innate lymphoid cells
| Category | RNA processing & translation |
|---|---|
| Genes | 20 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 11 of 20 genes have a known function matching the annotation |
Why this annotation
Hub genes include PSMD14 (proteasome 26S subunit, deubiquitinase), PSMA3 (proteasome subunit alpha 3), ZC3H15 (zinc finger CCCH-type, RNA binding), IK (IK cytokine/splicing factor), CSNK1A1 (casein kinase 1 alpha, Wnt/ubiquitin signaling), SNRPD3 (snRNP D3, spliceosome), RAP1B (Ras-related GTPase), DDX21 (DEAD-box helicase, rRNA processing), EIF3J (translation initiation), MOB1A (Hippo pathway), CBX5 (chromobox protein, heterochromatin), METAP2 (methionine aminopeptidase), BZW1 (translation), POLE3 (DNA polymerase epsilon subunit), HNRNPA3 (splicing), FNBP1 (actin/membrane dynamics), EIF2S1 (translation initiation), UBE2K (ubiquitin conjugating enzyme), MAGOH (exon junction complex). The module combines proteasome/ubiquitin components (PSMD14, PSMA3, UBE2K), splicing/RNA processing (SNRPD3, IK, HNRNPA3, MAGOH, DDX21), and translation (EIF3J, EIF2S1, BZW1). Moderate coherence with mixed membership. The proteasome genes are notable but the RNA processing theme is broader. Given the neighbor context of RNA processing modules and the predominance of RNA/translation genes, classifying as RNA processing with a protein degradation component. The proteasome genes may reflect co-regulation of protein homeostasis during activation.
Genes
BZW1, CBX5, CSNK1A1, DDX21, EIF2S1, EIF3J, ENPP1, FNBP1, HNRNPA3, IK, MAGOH, METAP2, MOB1A, POLE3, PSMA3, PSMD14, RAP1B, SNRPD3, UBE2K, ZC3H15
Most correlated modules
- RNA-binding & Splicing · correlation 0.93
- Pre-mRNA Splicing · correlation 0.93
- DNA Damage Response · correlation 0.92
- Splicing & Transcription · correlation 0.92
- Cell Cycle Entry · correlation 0.90
- ER-Golgi Trafficking · correlation 0.89
- mRNA Stability & Splicing · correlation 0.88
- TRiC Chaperonin Folding · 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.