Transcription factors with Perturb-seq knockdown data for DDX11-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 = DDX11-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 DDX11-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 |
|---|---|---|---|---|
| chr12:30,794,833–30,797,324 | 278.5 kb | Distal (>10kb) Multiome | 731 | |
| chr12:30,822,368–30,823,621 | 251.1 kb | Distal (>10kb) Multiome | 254 | |
| chr12:30,851,150–30,851,742 | 222.6 kb | Distal (>10kb) Multiome | 149 | |
| chr12:30,925,849–30,927,135 | 147.3 kb | Distal (>10kb) Multiome | 280 | |
| chr12:31,073,468–31,074,778 | 214 bp | At TSS Multiome | 544 | |
| chr12:31,080,302–31,080,568 | 6.5 kb | Proximal (<10kb) | 14 | |
| chr12:31,265,597–31,266,170 | 192.1 kb | Distal (>10kb) Multiome | 72 | |
| chr12:31,323,558–31,326,665 | 250.4 kb | Distal (>10kb) Multiome | 943 | |
| chr12:31,346,903–31,347,737 | 273.5 kb | Distal (>10kb) Multiome | 105 | |
| chr12:31,362,120–31,363,072 | 288.8 kb | Distal (>10kb) Multiome | 485 | |
| chr12:31,368,619–31,369,388 | 295.3 kb | Distal (>10kb) Multiome | 173 | |
| chr12:31,370,717–31,371,181 | 297.2 kb | Distal (>10kb) Multiome | 293 |
Genomic view of the DDX11-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.