Transcription factors with Perturb-seq knockdown data for EPCAM-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 = EPCAM-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 EPCAM-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 |
|---|---|---|---|---|
| chr2:46,986,672–46,987,498 | 357.9 kb | Distal (>10kb) Multiome HiCAR | 630 | |
| chr2:47,174,954–47,177,223 | 168.3 kb | Distal (>10kb) Multiome | 1239 | |
| chr2:47,272,083–47,272,830 | 72.6 kb | Distal (>10kb) Multiome | 744 | |
| chr2:47,309,704–47,310,671 | 35.0 kb | Distal (>10kb) Multiome | 599 | |
| chr2:47,334,741–47,335,387 | 9.7 kb | Proximal (<10kb) | 265 | |
| chr2:47,340,062–47,340,274 | 4.8 kb | Proximal (<10kb) | 251 | |
| chr2:47,344,491–47,344,760 | 313 bp | At TSS | 111 | |
| chr2:47,344,928–47,345,791 | 117 bp | At TSS Multiome | 714 | |
| chr2:47,357,404–47,357,893 | 12.5 kb | Distal (>10kb) Multiome | 106 | |
| chr2:47,368,887–47,370,156 | 24.2 kb | Distal (>10kb) Multiome | 897 | |
| chr2:47,401,975–47,403,688 | 57.9 kb | Distal (>10kb) Multiome | 1037 | |
| chr2:47,569,846–47,572,135 | 226.1 kb | Distal (>10kb) Multiome | 861 |
Genomic view of the EPCAM-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.