The protein encoded by this gene is a serine/threonine protein kinase required for normal entry into replicative senescence. The encoded protein also is involved in cell cycle arrest in response to double-stranded DNA damage. Finally, this protein plays a role in maintaining cilium integrity, and defects in this gene have been associated with ciliopathies. [provided by RefSeq, Jan 2017]
Transcription factors with Perturb-seq knockdown data for NEK4. 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 = NEK4 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 NEK4, 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 |
|---|---|---|---|---|
| chr3:52,518,607–52,519,389 | 252.0 kb | Distal (>10kb) Multiome | 176 | |
| chr3:52,533,486–52,535,316 | 237.0 kb | Distal (>10kb) Multiome | 648 | |
| chr3:52,536,232–52,537,450 | 234.4 kb | Distal (>10kb) Multiome | 901 | |
| chr3:52,685,427–52,686,463 | 85.1 kb | Distal (>10kb) Multiome | 933 | |
| chr3:52,705,495–52,706,415 | 65.0 kb | Distal (>10kb) Multiome | 862 | |
| chr3:52,714,354–52,715,301 | 56.3 kb | Distal (>10kb) Multiome | 224 | |
| chr3:52,770,467–52,771,332 | 47 bp | At TSS Multiome | 788 | |
| chr3:52,897,094–52,897,995 | 126.7 kb | Distal (>10kb) Multiome | 474 | |
| chr3:53,044,987–53,047,058 | 274.5 kb | Distal (>10kb) Multiome | 653 |
Genomic view of the NEK4 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.