Transcription factors with Perturb-seq knockdown data for EPHA1-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 = EPHA1-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 EPHA1-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 |
|---|---|---|---|---|
| chr7:143,263,111–143,264,043 | 144.3 kb | Distal (>10kb) Multiome | 857 | |
| chr7:143,284,394–143,285,772 | 122.9 kb | Distal (>10kb) Multiome | 381 | |
| chr7:143,287,670–143,288,978 | 119.5 kb | Distal (>10kb) Multiome | 878 | |
| chr7:143,345,279–143,346,282 | 62.2 kb | Distal (>10kb) Multiome | 433 | |
| chr7:143,361,157–143,363,235 | 45.0 kb | Distal (>10kb) Multiome | 388 | |
| chr7:143,380,012–143,382,328 | 26.6 kb | Distal (>10kb) Multiome | 946 | |
| chr7:143,405,536–143,406,754 | 1.6 kb | Proximal (<10kb) Multiome | 194 | |
| chr7:143,407,435–143,409,651 | 1.1 kb | Proximal (<10kb) Multiome | 459 | |
| chr7:143,410,641–143,411,076 | 2.8 kb | Proximal (<10kb) | 138 | |
| chr7:143,417,486–143,418,029 | 9.7 kb | Proximal (<10kb) | 44 |
Genomic view of the EPHA1-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.