Transcription factors with Perturb-seq knockdown data for ELF3-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 = ELF3-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 ELF3-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 |
|---|---|---|---|---|
| chr1:201,739,028–201,740,430 | 270.7 kb | Distal (>10kb) Multiome | 287 | |
| chr1:201,828,821–201,829,863 | 181.3 kb | Distal (>10kb) Multiome | 821 | |
| chr1:201,888,189–201,889,202 | 121.7 kb | Distal (>10kb) Multiome | 335 | |
| chr1:201,895,782–201,896,239 | 114.4 kb | Distal (>10kb) Multiome | 606 | |
| chr1:201,941,439–201,942,399 | 68.5 kb | Distal (>10kb) Multiome | 508 | |
| chr1:201,946,301–201,946,923 | 63.9 kb | Distal (>10kb) Multiome | 290 | |
| chr1:201,955,139–201,955,899 | 55.0 kb | Distal (>10kb) Multiome | 881 | |
| chr1:201,982,248–201,983,657 | 27.6 kb | Distal (>10kb) Multiome | 875 | |
| chr1:202,007,961–202,008,615 | 2.2 kb | Proximal (<10kb) Multiome | 368 | |
| chr1:202,009,428–202,011,367 | 77 bp | At TSS Multiome | 761 | |
| chr1:202,105,597–202,106,270 | 95.5 kb | Distal (>10kb) Multiome HiCAR | 376 | |
| chr1:202,143,721–202,144,890 | 133.5 kb | Distal (>10kb) Multiome | 589 | |
| chr1:202,184,705–202,185,268 | 174.5 kb | Distal (>10kb) Multiome | 258 | |
| chr1:202,214,010–202,214,579 | 203.9 kb | Distal (>10kb) Multiome | 215 | |
| chr1:202,235,967–202,236,655 | 225.9 kb | Distal (>10kb) Multiome | 460 | |
| chr1:202,237,030–202,237,425 | 226.8 kb | Distal (>10kb) Multiome | 305 |
Genomic view of the ELF3-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.