Transcription factors with Perturb-seq knockdown data for COPB2-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 = COPB2-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 COPB2-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 |
|---|---|---|---|---|
| chr3:139,329,180–139,329,822 | 60.3 kb | Distal (>10kb) Multiome | 549 | |
| chr3:139,343,851–139,344,613 | 45.7 kb | Distal (>10kb) Multiome | 725 | |
| chr3:139,389,189–139,390,485 | 38 bp | At TSS Multiome | 865 | |
| chr3:139,539,215–139,540,395 | 149.9 kb | Distal (>10kb) Multiome | 408 | |
| chr3:139,677,414–139,678,329 | 288.1 kb | Distal (>10kb) Multiome | 643 |
Genomic view of the COPB2-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.