Transcription factors with Perturb-seq knockdown data for ZKSCAN2-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 = ZKSCAN2-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 ZKSCAN2-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 |
|---|---|---|---|---|
| chr16:25,014,631–25,015,917 | 242.6 kb | Distal (>10kb) Multiome | 754 | |
| chr16:25,031,451–25,032,258 | 226.3 kb | Distal (>10kb) Multiome | 704 | |
| chr16:25,066,572–25,067,370 | 191.0 kb | Distal (>10kb) Multiome | 634 | |
| chr16:25,106,579–25,107,386 | 150.9 kb | Distal (>10kb) Multiome | 887 | |
| chr16:25,111,182–25,112,251 | 146.3 kb | Distal (>10kb) Multiome | 808 | |
| chr16:25,148,364–25,149,417 | 109.0 kb | Distal (>10kb) Multiome | 104 | |
| chr16:25,256,955–25,259,314 | 1.2 kb | Proximal (<10kb) Multiome | 1186 | |
| chr16:26,491,200–26,491,793 | 1233.5 kb | Distal (>10kb) Multiome HiCAR | 15 | |
| chr16:27,080,621–27,081,394 | 1823.0 kb | Distal (>10kb) Multiome HiCAR | 149 | |
| chr16:27,109,686–27,110,564 | 1852.0 kb | Distal (>10kb) Multiome HiCAR | 416 |
Genomic view of the ZKSCAN2-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.