Transcription factors with Perturb-seq knockdown data for SP2-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 = SP2-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 SP2-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 |
|---|---|---|---|---|
| chr17:47,648,863–47,650,987 | 246.1 kb | Distal (>10kb) Multiome | 1152 | |
| chr17:47,693,705–47,695,210 | 201.3 kb | Distal (>10kb) Multiome | 619 | |
| chr17:47,733,002–47,733,810 | 162.6 kb | Distal (>10kb) Multiome | 366 | |
| chr17:47,789,633–47,790,336 | 105.7 kb | Distal (>10kb) Multiome | 395 | |
| chr17:47,831,256–47,831,955 | 64.2 kb | Distal (>10kb) Multiome HiCAR | 856 | |
| chr17:47,840,790–47,841,702 | 54.5 kb | Distal (>10kb) Multiome HiCAR | 833 | |
| chr17:47,847,253–47,848,429 | 48.1 kb | Distal (>10kb) Multiome HiCAR | 193 | |
| chr17:47,850,617–47,851,614 | 44.6 kb | Distal (>10kb) Multiome | 694 | |
| chr17:47,889,999–47,890,223 | 5.6 kb | Proximal (<10kb) | 442 | |
| chr17:47,895,361–47,896,955 | 348 bp | At TSS Multiome | 1031 | |
| chr17:47,902,020–47,902,508 | 6.4 kb | Proximal (<10kb) Multiome | 101 | |
| chr17:47,941,283–47,941,880 | 45.7 kb | Distal (>10kb) Multiome | 958 | |
| chr17:47,970,487–47,971,547 | 75.2 kb | Distal (>10kb) Multiome | 1061 | |
| chr17:48,023,351–48,024,470 | 127.8 kb | Distal (>10kb) Multiome | 591 | |
| chr17:48,024,599–48,025,777 | 129.5 kb | Distal (>10kb) Multiome | 759 | |
| chr17:48,026,284–48,026,933 | 130.9 kb | Distal (>10kb) Multiome | 543 | |
| chr17:48,047,576–48,049,198 | 152.5 kb | Distal (>10kb) Multiome | 1134 | |
| chr17:48,053,836–48,055,155 | 158.7 kb | Distal (>10kb) Multiome | 327 | |
| chr17:48,055,581–48,056,000 | 160.2 kb | Distal (>10kb) Multiome | 337 | |
| chr17:48,100,593–48,101,963 | 205.6 kb | Distal (>10kb) Multiome | 974 | |
| chr17:48,107,198–48,108,007 | 211.8 kb | Distal (>10kb) Multiome | 841 | |
| chr17:48,160,363–48,161,134 | 264.9 kb | Distal (>10kb) Multiome | 299 |
Genomic view of the SP2-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.