Transcription factors with Perturb-seq knockdown data for BBOX1-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 = BBOX1-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 BBOX1-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 |
|---|---|---|---|---|
| chr11:26,935,672–26,936,561 | 282.4 kb | Distal (>10kb) Multiome | 212 | |
| chr11:27,186,846–27,189,000 | 30.4 kb | Distal (>10kb) Multiome | 303 | |
| chr11:27,219,624–27,219,776 | 889 bp | At TSS | 47 | |
| chr11:27,248,576–27,249,774 | 30.5 kb | Distal (>10kb) Multiome | 209 | |
| chr11:27,281,350–27,282,333 | 63.2 kb | Distal (>10kb) Multiome | 322 | |
| chr11:27,304,430–27,305,242 | 86.0 kb | Distal (>10kb) Multiome | 124 | |
| chr11:27,362,704–27,363,814 | 144.5 kb | Distal (>10kb) Multiome | 933 | |
| chr11:27,443,724–27,444,393 | 225.2 kb | Distal (>10kb) Multiome | 91 | |
| chr11:27,444,522–27,445,324 | 226.4 kb | Distal (>10kb) Multiome | 199 | |
| chr11:27,471,035–27,473,509 | 254.1 kb | Distal (>10kb) Multiome | 780 | |
| chr11:27,506,080–27,507,386 | 288.1 kb | Distal (>10kb) Multiome | 861 |
Genomic view of the BBOX1-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.