TNF/NF-kB response
Gene co-expression module in CD19⁺ B cells
| Category | BCR/AP1/NFKb pathway |
|---|---|
| Genes | 16 |
| Annotation certainty | 4 of 5 |
| Annotation consistency | 9 of 16 genes have a known function matching the annotation |
Why this annotation
Module is dominated by NFKB/AP1 immediate-early and inflammatory regulators: ATF3, DUSP5, BHLHE40, IRF2BP2, LITAF (LPS-induced TNF factor), TNFRSF1B (TNF receptor), CYLD (NFKB deubiquitinase), and RUNX3. SRGN, ADGRE5, CMTM6 are leukocyte activation markers. The collection of TNF/NFKB pathway regulators and AP1 transcription factors indicates an NFKB/inflammatory activation program. Core coherence and uniform expression are consistent with a genuine B-cell activation state, neighboring M87 (NFKB) supports this.
Genes
ADGRE5, ATF3, BHLHE40, CHD1, CMTM6, CYLD, DUSP5, FMNL1, IRF2BP2, LITAF, NRROS, RALGDS, RUNX3, SRGN, TNFRSF1B, TYMP
Most correlated modules
- Oxidative/ER stress · correlation 0.86
- NF-kB activation/survival · correlation 0.85
- Activation/Migration · correlation 0.81
- Activated B cell · correlation 0.80
- Membrane adhesion remodeling · correlation 0.77
- B cell activation · correlation 0.76
- Lysosomal proteases · correlation 0.74
- Atypical memory B cell · correlation 0.73
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.