Transcription factors with Perturb-seq knockdown data for SOX9-AS1. 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 = SOX9-AS1 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 SOX9-AS1, 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 |
|---|---|---|---|---|
| chr17:72,107,041–72,107,422 | 8.6 kb | Proximal (<10kb) | 19 | |
| chr17:72,115,645–72,116,949 | at TSS | At TSS | 205 | |
| chr17:72,117,747–72,118,875 | 1.7 kb | Proximal (<10kb) | 345 | |
| chr17:72,119,715–72,122,319 | 3.7 kb | Proximal (<10kb) | 897 | |
| chr17:72,122,581–72,123,172 | 6.6 kb | Proximal (<10kb) | 397 | |
| chr17:72,123,273–72,124,425 | 7.3 kb | Proximal (<10kb) | 510 |
Genomic view of the SOX9-AS1 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.