Modification of cellular proteins by ubiquitin is an essential regulatory mechanism controlled by the coordinated action of multiple ubiquitin-conjugating and deubiquitinating enzymes. USP46 belongs to a large family of cysteine proteases that function as deubiquitinating enzymes (Quesada et al., 2004 [PubMed 14715245]).[supplied by OMIM, Jun 2009]
Transcription factors with Perturb-seq knockdown data for USP46. 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 = USP46 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 USP46, 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 |
|---|---|---|---|---|
| chr4:52,657,281–52,658,511 | 1.3 kb | Proximal (<10kb) Multiome | 230 | |
| chr4:52,658,663–52,660,293 | 79 bp | At TSS Multiome | 590 | |
| chr4:52,660,663–52,661,052 | 1.4 kb | Proximal (<10kb) | 23 | |
| chr4:52,711,775–52,713,336 | 53.1 kb | Distal (>10kb) Multiome | 936 | |
| chr4:52,721,591–52,722,821 | 63.1 kb | Distal (>10kb) Multiome | 629 | |
| chr4:52,750,745–52,752,040 | 92.3 kb | Distal (>10kb) Multiome | 368 | |
| chr4:52,834,642–52,835,399 | 175.7 kb | Distal (>10kb) Multiome | 83 | |
| chr4:52,861,376–52,863,512 | 202.9 kb | Distal (>10kb) Multiome | 543 | |
| chr4:52,873,892–52,874,335 | 214.8 kb | Distal (>10kb) Multiome | 112 |
Genomic view of the USP46 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.