Transcription factors with Perturb-seq knockdown data for PROX1-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 = PROX1-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 PROX1-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 |
|---|---|---|---|---|
| chr1:213,693,743–213,694,416 | 293.7 kb | Distal (>10kb) Multiome | 89 | |
| chr1:213,976,772–213,977,929 | 10.4 kb | Distal (>10kb) Multiome | 346 | |
| chr1:213,978,867–213,979,028 | 8.7 kb | Proximal (<10kb) | 10 | |
| chr1:213,979,557–213,980,562 | 7.2 kb | Proximal (<10kb) | 196 | |
| chr1:213,982,546–213,986,860 | 3.1 kb | Proximal (<10kb) Multiome | 731 | |
| chr1:213,987,385–213,990,006 | 189 bp | At TSS Multiome | 745 | |
| chr1:214,122,937–214,123,675 | 135.6 kb | Distal (>10kb) Multiome HiCAR | 368 | |
| chr1:214,154,263–214,155,345 | 167.0 kb | Distal (>10kb) Multiome | 230 | |
| chr1:214,280,447–214,282,049 | 293.6 kb | Distal (>10kb) Multiome | 869 |
Genomic view of the PROX1-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.