This gene encodes a member of the tumor necrosis factor receptor superfamily. The major ligands of this receptor include lymphotoxin alpha/beta and tumor necrosis factor ligand superfamily member 14. The encoded protein plays a role in signalling during the development of lymphoid and other organs, lipid metabolism, immune response, and programmed cell death. Activity of this receptor has also been linked to carcinogenesis. Alternatively spliced transcript variants encoding multiple isoforms have been observed. [provided by RefSeq, Aug 2012]
Transcription factors with Perturb-seq knockdown data for LTBR. 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 = LTBR 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 LTBR, 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 |
|---|---|---|---|---|
| chr12:6,124,068–6,125,228 | 250.7 kb | Distal (>10kb) Multiome | 240 | |
| chr12:6,199,391–6,201,130 | 175.2 kb | Distal (>10kb) Multiome | 481 | |
| chr12:6,278,466–6,279,375 | 96.6 kb | Distal (>10kb) Multiome | 655 | |
| chr12:6,310,091–6,311,512 | 64.7 kb | Distal (>10kb) Multiome | 645 | |
| chr12:6,322,926–6,323,961 | 52.0 kb | Distal (>10kb) Multiome HiCAR | 536 | |
| chr12:6,335,766–6,337,493 | 38.8 kb | Distal (>10kb) Multiome | 962 | |
| chr12:6,341,619–6,342,234 | 33.2 kb | Distal (>10kb) Multiome | 657 | |
| chr12:6,363,292–6,364,138 | 11.9 kb | Distal (>10kb) Multiome | 718 | |
| chr12:6,370,899–6,371,535 | 4.2 kb | Proximal (<10kb) Multiome | 572 | |
| chr12:6,375,204–6,377,302 | 46 bp | At TSS Multiome | 601 | |
| chr12:6,383,790–6,384,442 | 8.7 kb | Proximal (<10kb) Multiome HiCAR | 812 | |
| chr12:6,469,922–6,471,399 | 95.4 kb | Distal (>10kb) Multiome | 930 | |
| chr12:6,492,998–6,494,331 | 117.9 kb | Distal (>10kb) Multiome | 936 | |
| chr12:6,533,253–6,535,726 | 158.9 kb | Distal (>10kb) Multiome | 1131 | |
| chr12:6,539,914–6,540,883 | 165.2 kb | Distal (>10kb) Multiome | 427 | |
| chr12:6,554,111–6,554,621 | 178.9 kb | Distal (>10kb) Multiome | 407 | |
| chr12:6,555,532–6,556,318 | 180.7 kb | Distal (>10kb) Multiome | 551 | |
| chr12:6,567,822–6,568,719 | 192.9 kb | Distal (>10kb) Multiome | 837 | |
| chr12:6,605,947–6,607,790 | 232.0 kb | Distal (>10kb) Multiome | 774 | |
| chr12:6,613,155–6,614,551 | 238.7 kb | Distal (>10kb) Multiome | 810 | |
| chr12:6,620,128–6,620,868 | 245.1 kb | Distal (>10kb) Multiome | 239 | |
| chr12:6,662,802–6,663,663 | 287.8 kb | Distal (>10kb) Multiome | 868 |
Genomic view of the LTBR 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.