The protein encoded by this gene, a member of the HMGN protein family, is thought to reduce the compactness of the chromatin fiber in nucleosomes, thereby enhancing transcription from chromatin templates. [provided by RefSeq, Mar 2013]
Transcription factors with Perturb-seq knockdown data for HMGN4. 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 = HMGN4 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 HMGN4, 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 |
|---|---|---|---|---|
| chr6:26,239,944–26,240,920 | 298.0 kb | Distal (>10kb) Multiome | 375 | |
| chr6:26,249,682–26,251,138 | 288.0 kb | Distal (>10kb) Multiome | 731 | |
| chr6:26,251,339–26,252,079 | 286.6 kb | Distal (>10kb) Multiome | 445 | |
| chr6:26,270,815–26,273,967 | 265.4 kb | Distal (>10kb) Multiome | 742 | |
| chr6:26,285,011–26,286,121 | 252.8 kb | Distal (>10kb) Multiome | 1121 | |
| chr6:26,304,972–26,305,585 | 233.0 kb | Distal (>10kb) Multiome | 586 | |
| chr6:26,312,505–26,313,475 | 225.4 kb | Distal (>10kb) Multiome HiCAR | 896 | |
| chr6:26,322,092–26,323,232 | 215.7 kb | Distal (>10kb) Multiome HiCAR | 811 | |
| chr6:26,327,476–26,328,318 | 210.2 kb | Distal (>10kb) Multiome HiCAR | 716 | |
| chr6:26,341,545–26,342,139 | 196.6 kb | Distal (>10kb) Multiome HiCAR | 716 | |
| chr6:26,365,073–26,365,647 | 173.1 kb | Distal (>10kb) Multiome | 587 | |
| chr6:26,382,957–26,383,951 | 155.2 kb | Distal (>10kb) Multiome | 448 | |
| chr6:26,421,258–26,421,866 | 116.9 kb | Distal (>10kb) Multiome | 473 | |
| chr6:26,457,390–26,458,395 | 80.5 kb | Distal (>10kb) Multiome | 525 | |
| chr6:26,473,842–26,474,357 | 64.2 kb | Distal (>10kb) Multiome | 487 | |
| chr6:26,520,324–26,522,398 | 17.4 kb | Distal (>10kb) Multiome | 1082 | |
| chr6:26,532,765–26,533,409 | 5.3 kb | Proximal (<10kb) Multiome | 830 | |
| chr6:26,537,180–26,538,912 | 64 bp | At TSS Multiome | 1114 | |
| chr6:26,550,296–26,550,971 | 12.3 kb | Distal (>10kb) Multiome | 695 | |
| chr6:26,553,165–26,553,642 | 15.1 kb | Distal (>10kb) Multiome | 561 | |
| chr6:26,553,738–26,555,437 | 15.7 kb | Distal (>10kb) Multiome | 779 | |
| chr6:26,556,432–26,557,038 | 18.2 kb | Distal (>10kb) Multiome | 676 | |
| chr6:26,571,613–26,572,233 | 33.6 kb | Distal (>10kb) Multiome | 861 | |
| chr6:26,595,619–26,596,282 | 57.5 kb | Distal (>10kb) Multiome | 798 | |
| chr6:26,596,497–26,597,408 | 58.6 kb | Distal (>10kb) Multiome | 940 | |
| chr6:26,659,338–26,660,351 | 121.4 kb | Distal (>10kb) Multiome | 748 |
Genomic view of the HMGN4 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.