Transcription factors with Perturb-seq knockdown data for FOXCUT. 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 = FOXCUT 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 FOXCUT, 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 |
|---|---|---|---|---|
| chr6:1,595,602–1,596,723 | 8.8 kb | Proximal (<10kb) | 325 | |
| chr6:1,596,826–1,597,922 | 7.6 kb | Proximal (<10kb) | 307 | |
| chr6:1,604,125–1,605,503 | 27 bp | At TSS | 591 | |
| chr6:1,606,436–1,607,329 | 905 bp | At TSS | 251 | |
| chr6:1,607,558–1,608,252 | 2.0 kb | Proximal (<10kb) | 448 | |
| chr6:1,608,357–1,612,111 | 2.8 kb | Proximal (<10kb) | 614 | |
| chr6:1,613,539–1,615,618 | 8.0 kb | Proximal (<10kb) | 556 |
Genomic view of the FOXCUT 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.