Transcription factors with Perturb-seq knockdown data for PDGFA-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 = PDGFA-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 PDGFA-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 |
|---|---|---|---|---|
| chr7:514,963–515,154 | 5.2 kb | Proximal (<10kb) | 75 | |
| chr7:515,390–516,162 | 4.2 kb | Proximal (<10kb) | 84 | |
| chr7:516,552–517,550 | 2.8 kb | Proximal (<10kb) | 288 | |
| chr7:518,285–518,659 | 1.7 kb | Proximal (<10kb) | 143 | |
| chr7:518,879–521,101 | at TSS | At TSS | 523 |
Genomic view of the PDGFA-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.