Lipopolysaccharide is a potent stimulator of monocytes and macrophages, causing secretion of tumor necrosis factor-alpha (TNF-alpha) and other inflammatory mediators. This gene encodes lipopolysaccharide-induced TNF-alpha factor, which is a DNA-binding protein and can mediate the TNF-alpha expression by direct binding to the promoter region of the TNF-alpha gene. The transcription of this gene is induced by tumor suppressor p53 and has been implicated in the p53-induced apoptotic pathway. Mutations in this gene cause Charcot-Marie-Tooth disease type 1C (CMT1C) and may be involved in the carcinogenesis of extramammary Paget's disease (EMPD). Multiple alternatively spliced transcript variants have been found for this gene. [provided by RefSeq, Dec 2014]
Transcription factors with Perturb-seq knockdown data for LITAF. 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 = LITAF 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 LITAF, 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 |
|---|---|---|---|---|
| chr16:11,315,468–11,315,998 | 320.7 kb | Distal (>10kb) Multiome | 240 | |
| chr16:11,328,368–11,329,056 | 307.7 kb | Distal (>10kb) Multiome | 405 | |
| chr16:11,344,993–11,345,929 | 291.0 kb | Distal (>10kb) Multiome | 820 | |
| chr16:11,586,675–11,587,433 | 49.3 kb | Distal (>10kb) Multiome | 663 | |
| chr16:11,636,316–11,636,719 | at TSS | At TSS | 127 | |
| chr16:11,667,937–11,668,794 | 32.0 kb | Distal (>10kb) Multiome | 540 | |
| chr16:11,742,120–11,743,349 | 106.5 kb | Distal (>10kb) Multiome | 1040 | |
| chr16:11,796,876–11,797,981 | 161.0 kb | Distal (>10kb) Multiome | 986 | |
| chr16:11,851,115–11,852,070 | 215.1 kb | Distal (>10kb) Multiome | 978 | |
| chr16:11,876,086–11,876,741 | 240.0 kb | Distal (>10kb) Multiome | 80 | |
| chr16:11,915,000–11,916,719 | 279.7 kb | Distal (>10kb) Multiome | 1130 |
Genomic view of the LITAF 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.