This gene encodes a member of the non-histone chromosomal high mobility group protein family. The proteins of this family are chromatin-associated and ubiquitously distributed in the nucleus of higher eukaryotic cells. In vitro studies have demonstrated that this protein is able to efficiently bend DNA and form DNA circles. These studies suggest a role in facilitating cooperative interactions between cis-acting proteins by promoting DNA flexibility. This protein was also reported to be involved in the final ligation step in DNA end-joining processes of DNA double-strand breaks repair and V(D)J recombination. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for HMGB2. 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 = HMGB2 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 HMGB2, 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 |
|---|---|---|---|---|
| chr4:173,073,972–173,074,966 | 259.9 kb | Distal (>10kb) Multiome | 454 | |
| chr4:173,167,923–173,170,542 | 164.6 kb | Distal (>10kb) Multiome | 816 | |
| chr4:173,333,360–173,335,855 | 1.0 kb | Proximal (<10kb) Multiome | 1085 | |
| chr4:173,343,696–173,344,345 | 9.3 kb | Proximal (<10kb) | 92 | |
| chr4:173,369,270–173,372,372 | 36.5 kb | Distal (>10kb) Multiome | 989 | |
| chr4:173,448,962–173,449,725 | 114.9 kb | Distal (>10kb) Multiome | 186 | |
| chr4:173,494,018–173,494,859 | 160.1 kb | Distal (>10kb) Multiome | 388 | |
| chr4:173,521,529–173,524,247 | 188.1 kb | Distal (>10kb) Multiome | 413 | |
| chr4:173,526,721–173,528,011 | 193.0 kb | Distal (>10kb) Multiome | 247 | |
| chr4:173,608,292–173,609,220 | 274.3 kb | Distal (>10kb) Multiome | 219 |
Genomic view of the HMGB2 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.