Transcription factors with Perturb-seq knockdown data for SPOPL-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 = SPOPL-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 SPOPL-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 |
|---|---|---|---|---|
| chr2:138,276,391–138,277,765 | 225.1 kb | Distal (>10kb) Multiome | 268 | |
| chr2:138,447,903–138,448,618 | 53.3 kb | Distal (>10kb) Multiome | 66 | |
| chr2:138,493,306–138,493,740 | 8.0 kb | Proximal (<10kb) | 166 | |
| chr2:138,501,114–138,502,778 | 104 bp | At TSS Multiome | 945 | |
| chr2:138,699,252–138,700,210 | 198.0 kb | Distal (>10kb) Multiome | 215 |
Genomic view of the SPOPL-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.