Transcription factors with Perturb-seq knockdown data for COPS8-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 = COPS8-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 COPS8-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 |
|---|---|---|---|---|
| chr2:236,177,631–236,178,437 | 907.6 kb | Distal (>10kb) Multiome HiCAR | 437 | |
| chr2:236,237,432–236,238,127 | 848.1 kb | Distal (>10kb) Multiome HiCAR | 130 | |
| chr2:236,567,303–236,570,807 | 518.1 kb | Distal (>10kb) Multiome HiCAR | 479 | |
| chr2:236,822,898–236,824,383 | 262.5 kb | Distal (>10kb) Multiome | 178 | |
| chr2:236,955,589–236,957,065 | 129.4 kb | Distal (>10kb) Multiome | 297 | |
| chr2:237,085,238–237,086,212 | 11 bp | At TSS Multiome | 935 | |
| chr2:237,134,316–237,134,940 | 48.8 kb | Distal (>10kb) Multiome | 94 |
Genomic view of the COPS8-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.