USP30, a member of the ubiquitin-specific protease family (see USP1, MIM 603478), is a novel mitochondrial deubiquitinating (DUB) enzyme (Nakamura and Hirose, 2008 [PubMed 18287522]).[supplied by OMIM, Dec 2008]
Transcription factors with Perturb-seq knockdown data for USP30. 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 = USP30 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 USP30, 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 |
|---|---|---|---|---|
| chr12:108,802,154–108,802,651 | 250.3 kb | Distal (>10kb) Multiome | 135 | |
| chr12:108,856,753–108,858,260 | 194.9 kb | Distal (>10kb) Multiome | 698 | |
| chr12:109,052,237–109,053,072 | 4 bp | At TSS Multiome | 965 | |
| chr12:109,069,700–109,070,229 | 17.4 kb | Distal (>10kb) Multiome | 118 | |
| chr12:109,093,224–109,093,868 | 40.9 kb | Distal (>10kb) Multiome | 998 | |
| chr12:109,097,190–109,098,740 | 45.5 kb | Distal (>10kb) Multiome | 758 | |
| chr12:109,110,997–109,111,481 | 58.6 kb | Distal (>10kb) Multiome | 593 | |
| chr12:109,154,096–109,155,355 | 102.3 kb | Distal (>10kb) Multiome | 595 | |
| chr12:109,308,986–109,310,221 | 256.7 kb | Distal (>10kb) Multiome | 331 |
Genomic view of the USP30 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.