The nucleoside diphosphate (NDP) kinases (EC 2.7.4.6) are ubiquitous enzymes that catalyze transfer of gamma-phosphates, via a phosphohistidine intermediate, between nucleoside and dioxynucleoside tri- and diphosphates. The enzymes are products of the nm23 gene family, which includes NME4 (Milon et al., 1997 [PubMed 9099850]).[supplied by OMIM, May 2008]
Transcription factors with Perturb-seq knockdown data for NME4. 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 = NME4 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 NME4, 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 |
|---|---|---|---|---|
| chr16:138,551–139,186 | 258.5 kb | Distal (>10kb) Multiome | 674 | |
| chr16:164,983–166,147 | 232.1 kb | Distal (>10kb) Multiome | 234 | |
| chr16:180,313–181,713 | 215.7 kb | Distal (>10kb) Multiome | 994 | |
| chr16:228,869–229,598 | 167.9 kb | Distal (>10kb) Multiome | 1035 | |
| chr16:234,152–235,669 | 162.4 kb | Distal (>10kb) Multiome | 908 | |
| chr16:351,804–354,436 | 44.3 kb | Distal (>10kb) Multiome | 654 | |
| chr16:378,999–379,813 | 17.8 kb | Distal (>10kb) Multiome | 225 | |
| chr16:380,836–382,614 | 15.2 kb | Distal (>10kb) Multiome | 634 | |
| chr16:383,438–384,218 | 13.4 kb | Distal (>10kb) Multiome | 342 | |
| chr16:396,893–397,640 | 290 bp | At TSS Multiome | 496 | |
| chr16:397,727–398,272 | 529 bp | At TSS | 342 | |
| chr16:400,630–401,252 | 3.4 kb | Proximal (<10kb) | 292 | |
| chr16:401,380–402,199 | 4.7 kb | Proximal (<10kb) Multiome | 818 | |
| chr16:424,888–426,136 | 28.4 kb | Distal (>10kb) Multiome | 752 | |
| chr16:483,333–484,000 | 86.5 kb | Distal (>10kb) Multiome | 143 | |
| chr16:526,749–528,601 | 130.4 kb | Distal (>10kb) Multiome HiCAR | 811 | |
| chr16:569,530–570,338 | 172.7 kb | Distal (>10kb) Multiome | 492 | |
| chr16:578,896–579,353 | 182.0 kb | Distal (>10kb) Multiome | 511 | |
| chr16:588,593–590,724 | 192.7 kb | Distal (>10kb) Multiome HiCAR | 853 | |
| chr16:635,900–638,127 | 239.2 kb | Distal (>10kb) Multiome | 1021 | |
| chr16:641,491–643,007 | 244.7 kb | Distal (>10kb) Multiome | 856 | |
| chr16:648,795–649,829 | 252.1 kb | Distal (>10kb) Multiome | 862 | |
| chr16:660,457–661,656 | 263.7 kb | Distal (>10kb) Multiome | 456 | |
| chr16:667,633–668,442 | 270.8 kb | Distal (>10kb) Multiome | 838 | |
| chr16:678,847–681,585 | 282.8 kb | Distal (>10kb) Multiome | 803 | |
| chr16:683,618–684,859 | 287.2 kb | Distal (>10kb) Multiome | 701 | |
| chr16:694,897–695,485 | 298.2 kb | Distal (>10kb) Multiome | 390 |
Genomic view of the NME4 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.