Transcription factors with Perturb-seq knockdown data for COP1-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 = COP1-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 COP1-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 |
|---|---|---|---|---|
| chr1:175,918,376–175,919,101 | 289.0 kb | Distal (>10kb) Multiome | 174 | |
| chr1:175,920,416–175,921,239 | 286.8 kb | Distal (>10kb) Multiome | 64 | |
| chr1:175,922,238–175,922,917 | 285.2 kb | Distal (>10kb) Multiome | 74 | |
| chr1:175,932,693–175,933,588 | 274.4 kb | Distal (>10kb) Multiome | 87 | |
| chr1:176,206,290–176,207,914 | 185 bp | At TSS Multiome | 913 | |
| chr1:176,224,630–176,225,765 | 17.5 kb | Distal (>10kb) Multiome | 156 | |
| chr1:176,227,488–176,227,937 | 20.1 kb | Distal (>10kb) Multiome | 80 | |
| chr1:176,349,624–176,350,446 | 142.4 kb | Distal (>10kb) Multiome | 132 |
Genomic view of the COP1-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.