The product of this gene belongs to the SNF2/RAD54 helicase family. It represents the main component of the nucleosome remodeling and deacetylase complex and plays an important role in epigenetic transcriptional repression. Patients with dermatomyositis develop antibodies against this protein. Somatic mutations in this gene are associated with serous endometrial tumors. Alternative splicing results in multiple transcript variants encoding different isoforms. [provided by RefSeq, Jul 2014]
Transcription factors with Perturb-seq knockdown data for CHD4. 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 = CHD4 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 CHD4, 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 |
|---|---|---|---|---|
| chr12:6,310,091–6,311,512 | 303.7 kb | Distal (>10kb) Multiome | 645 | |
| chr12:6,322,926–6,323,961 | 291.0 kb | Distal (>10kb) Multiome | 536 | |
| chr12:6,329,238–6,330,028 | 284.8 kb | Distal (>10kb) Multiome | 135 | |
| chr12:6,335,766–6,337,493 | 277.7 kb | Distal (>10kb) Multiome | 962 | |
| chr12:6,341,619–6,342,234 | 272.2 kb | Distal (>10kb) Multiome | 657 | |
| chr12:6,363,292–6,364,138 | 250.8 kb | Distal (>10kb) Multiome | 718 | |
| chr12:6,370,899–6,371,535 | 243.1 kb | Distal (>10kb) Multiome | 572 | |
| chr12:6,375,204–6,377,302 | 238.9 kb | Distal (>10kb) Multiome | 601 | |
| chr12:6,383,790–6,384,442 | 230.3 kb | Distal (>10kb) Multiome | 812 | |
| chr12:6,451,305–6,451,838 | 163.0 kb | Distal (>10kb) Multiome | 535 | |
| chr12:6,469,922–6,471,399 | 143.5 kb | Distal (>10kb) Multiome | 930 | |
| chr12:6,492,998–6,494,331 | 121.1 kb | Distal (>10kb) Multiome | 936 | |
| chr12:6,533,253–6,535,726 | 80.1 kb | Distal (>10kb) Multiome | 1131 | |
| chr12:6,539,914–6,540,883 | 73.7 kb | Distal (>10kb) Multiome | 427 | |
| chr12:6,554,111–6,554,621 | 60.1 kb | Distal (>10kb) Multiome | 407 | |
| chr12:6,555,532–6,556,318 | 58.3 kb | Distal (>10kb) Multiome | 551 | |
| chr12:6,567,822–6,568,719 | 46.0 kb | Distal (>10kb) Multiome HiCAR | 837 | |
| chr12:6,605,947–6,607,790 | 6.9 kb | Proximal (<10kb) Multiome HiCAR | 774 | |
| chr12:6,613,155–6,614,551 | 287 bp | At TSS Multiome | 810 | |
| chr12:6,617,762–6,617,994 | 3.4 kb | Proximal (<10kb) | 307 | |
| chr12:6,620,128–6,620,868 | 6.1 kb | Proximal (<10kb) Multiome | 239 | |
| chr12:6,662,802–6,663,663 | 48.9 kb | Distal (>10kb) Multiome | 868 | |
| chr12:6,688,517–6,690,027 | 75.1 kb | Distal (>10kb) Multiome HiCAR | 943 | |
| chr12:6,699,959–6,700,887 | 86.1 kb | Distal (>10kb) Multiome HiCAR | 263 | |
| chr12:6,723,658–6,724,773 | 109.7 kb | Distal (>10kb) Multiome | 1065 | |
| chr12:6,752,554–6,754,332 | 139.1 kb | Distal (>10kb) Multiome | 975 | |
| chr12:6,763,677–6,764,983 | 150.0 kb | Distal (>10kb) Multiome | 570 | |
| chr12:6,765,172–6,767,791 | 151.9 kb | Distal (>10kb) Multiome | 824 | |
| chr12:6,768,329–6,769,331 | 154.7 kb | Distal (>10kb) Multiome HiCAR | 249 | |
| chr12:6,778,736–6,779,459 | 164.7 kb | Distal (>10kb) Multiome | 777 | |
| chr12:6,821,268–6,822,155 | 207.4 kb | Distal (>10kb) Multiome HiCAR | 299 | |
| chr12:6,825,458–6,825,915 | 211.3 kb | Distal (>10kb) Multiome HiCAR | 404 | |
| chr12:6,828,101–6,829,966 | 215.2 kb | Distal (>10kb) Multiome HiCAR | 689 | |
| chr12:6,851,017–6,853,279 | 238.0 kb | Distal (>10kb) Multiome | 966 | |
| chr12:6,866,801–6,870,175 | 253.1 kb | Distal (>10kb) Multiome | 887 | |
| chr12:6,871,062–6,874,199 | 258.0 kb | Distal (>10kb) Multiome | 947 | |
| chr12:6,890,735–6,891,820 | 276.8 kb | Distal (>10kb) Multiome | 908 | |
| chr12:6,904,217–6,905,282 | 290.4 kb | Distal (>10kb) Multiome | 566 | |
| chr12:6,914,274–6,914,898 | 300.1 kb | Distal (>10kb) Multiome | 536 |
Genomic view of the CHD4 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.