Transcription factors with Perturb-seq knockdown data for USP34-DT. 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 = USP34-DT 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 USP34-DT, 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 |
|---|---|---|---|---|
| chr2:61,176,826–61,178,378 | 293.9 kb | Distal (>10kb) Multiome | 1042 | |
| chr2:61,470,163–61,471,979 | 145 bp | At TSS Multiome | 981 | |
| chr2:61,536,176–61,537,197 | 65.5 kb | Distal (>10kb) Multiome | 761 | |
| chr2:61,537,790–61,539,376 | 67.4 kb | Distal (>10kb) Multiome | 949 | |
| chr2:61,694,419–61,695,205 | 223.6 kb | Distal (>10kb) Multiome | 599 | |
| chr2:61,763,751–61,764,826 | 293.1 kb | Distal (>10kb) Multiome | 975 |
Genomic view of the USP34-DT 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.