Pre-mRNA Splicing
Gene co-expression module in Macrophages
| Category | Housekeeping |
|---|---|
| Genes | 20 |
| Annotation certainty | 4 of 5 |
| Annotation consistency | 16 of 20 genes have a known function matching the annotation |
Why this annotation
The hub genes are overwhelmingly RNA splicing and processing factors: SF3B1 (U2 snRNP splicing factor), FUS (RNA-binding protein, splicing/transcription), SF1 (splicing factor 1), DDX5 (RNA helicase, splicing), RBM25 (splicing regulator), SFPQ (splicing/transcription), DDX3X (RNA helicase), HNRNPH1, HNRNPU, HNRNPH3 (heterogeneous nuclear ribonucleoproteins), SON (splicing factor), SRSF5, SRSF6 (serine/arginine-rich splicing factors), EWSR1 (RNA-binding), BCLAF1 (splicing/apoptosis), RNMT (mRNA capping). This is a tightly themed pre-mRNA splicing module. Neighbor context (M56, M67 also contain splicing factors) supports this. The mild mono_mac enrichment for some genes reflects higher transcriptional activity in monocyte-derived macrophages rather than contamination.
Genes
BCLAF1, CSNK1A1, DDX3X, DDX5, EWSR1, FUS, HNRNPH1, HNRNPH3, HNRNPU, PHF20L1, RBM25, RNMT, SF1, SF3B1, SFPQ, SON, SRSF5, SRSF6, USP16, ZNF207
Most correlated modules
- RNA Splicing Processing · correlation 0.97
- General Cellular Maintenance · correlation 0.96
- Pre-mRNA Splicing · correlation 0.96
- Transcriptional Elongation · correlation 0.95
- Ubiquitin-ERAD Proteostasis · correlation 0.95
- mRNA Splicing Processing · correlation 0.95
- RNA Processing Housekeeping · correlation 0.94
- RNA Processing Regulation · correlation 0.94
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.