Tumor necrosis factor alpha (TNF-alpha) is a signaling molecule that interacts with one of two receptors on cells targeted for apoptosis. The apoptotic signal is transduced inside these cells by cytoplasmic adaptor proteins. The protein encoded by this gene is a death domain-containing adaptor protein that interacts with the death domain of TNF-alpha receptor 1 to activate mitogen-activated protein kinase (MAPK) and propagate the apoptotic signal. It is membrane-bound and expressed at a higher level in neoplastic cells than in normal cells. Several transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for MADD. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = MADD upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of MADD, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr11:47,160,949–47,161,864 | 108.2 kb | Distal (>10kb) Multiome | 322 | |
| chr11:47,176,472–47,177,856 | 92.6 kb | Distal (>10kb) Multiome | 857 | |
| chr11:47,184,866–47,187,095 | 83.2 kb | Distal (>10kb) Multiome | 849 | |
| chr11:47,214,114–47,215,529 | 54.8 kb | Distal (>10kb) Multiome | 785 | |
| chr11:47,248,482–47,249,399 | 20.8 kb | Distal (>10kb) Multiome | 1059 | |
| chr11:47,257,299–47,258,204 | 11.9 kb | Distal (>10kb) Multiome | 519 | |
| chr11:47,259,310–47,259,960 | 10.0 kb | Distal (>10kb) Multiome | 270 | |
| chr11:47,268,988–47,270,613 | 147 bp | At TSS Multiome | 884 | |
| chr11:47,272,096–47,272,484 | 2.4 kb | Proximal (<10kb) | 102 | |
| chr11:47,275,803–47,276,887 | 6.1 kb | Proximal (<10kb) | 110 | |
| chr11:47,354,896–47,355,720 | 85.7 kb | Distal (>10kb) Multiome HiCAR | 670 | |
| chr11:47,399,791–47,400,763 | 130.6 kb | Distal (>10kb) Multiome | 450 | |
| chr11:47,407,671–47,409,059 | 138.7 kb | Distal (>10kb) Multiome | 986 | |
| chr11:47,425,998–47,427,263 | 156.8 kb | Distal (>10kb) Multiome | 879 | |
| chr11:47,508,005–47,509,036 | 238.9 kb | Distal (>10kb) Multiome | 73 | |
| chr11:47,552,255–47,553,700 | 283.6 kb | Distal (>10kb) Multiome | 834 | |
| chr11:47,564,988–47,566,330 | 295.9 kb | Distal (>10kb) Multiome | 842 |
Genomic view of the MADD locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.