Transcription factors with Perturb-seq knockdown data for BOLA3-DT. 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 = BOLA3-DT 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 BOLA3-DT, 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 |
|---|---|---|---|---|
| chr2:73,921,096–73,921,666 | 226.7 kb | Distal (>10kb) Multiome | 284 | |
| chr2:73,926,648–73,927,193 | 221.2 kb | Distal (>10kb) Multiome | 961 | |
| chr2:73,981,145–73,981,910 | 166.5 kb | Distal (>10kb) Multiome | 483 | |
| chr2:73,983,451–73,985,871 | 164.3 kb | Distal (>10kb) Multiome | 821 | |
| chr2:74,002,059–74,003,348 | 145.4 kb | Distal (>10kb) Multiome | 514 | |
| chr2:74,026,198–74,026,578 | 121.6 kb | Distal (>10kb) Multiome | 88 | |
| chr2:74,119,987–74,120,643 | 27.7 kb | Distal (>10kb) Multiome | 969 | |
| chr2:74,147,573–74,148,843 | 18 bp | At TSS Multiome | 884 | |
| chr2:74,178,147–74,179,324 | 30.9 kb | Distal (>10kb) Multiome | 869 | |
| chr2:74,187,993–74,188,519 | 40.2 kb | Distal (>10kb) Multiome | 192 | |
| chr2:74,198,074–74,199,486 | 50.5 kb | Distal (>10kb) Multiome | 1098 | |
| chr2:74,374,253–74,375,246 | 226.7 kb | Distal (>10kb) Multiome | 158 | |
| chr2:74,391,129–74,392,484 | 243.8 kb | Distal (>10kb) Multiome | 876 | |
| chr2:74,421,273–74,422,464 | 273.7 kb | Distal (>10kb) Multiome | 756 | |
| chr2:74,440,246–74,442,723 | 292.7 kb | Distal (>10kb) Multiome | 1050 |
Genomic view of the BOLA3-DT 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.