Transcription factors with Perturb-seq knockdown data for EXO5-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 = EXO5-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 EXO5-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 |
|---|---|---|---|---|
| chr1:40,257,418–40,258,681 | 250.6 kb | Distal (>10kb) Multiome | 1088 | |
| chr1:40,315,144–40,317,664 | 193.2 kb | Distal (>10kb) Multiome | 729 | |
| chr1:40,373,298–40,374,444 | 135.0 kb | Distal (>10kb) Multiome | 747 | |
| chr1:40,394,885–40,396,067 | 113.0 kb | Distal (>10kb) Multiome | 153 | |
| chr1:40,449,758–40,450,645 | 58.5 kb | Distal (>10kb) Multiome | 807 | |
| chr1:40,476,972–40,477,791 | 31.3 kb | Distal (>10kb) Multiome | 683 | |
| chr1:40,508,401–40,509,160 | 95 bp | At TSS Multiome | 805 | |
| chr1:40,531,425–40,532,089 | 22.9 kb | Distal (>10kb) Multiome | 724 | |
| chr1:40,665,223–40,666,079 | 157.0 kb | Distal (>10kb) Multiome | 465 | |
| chr1:40,691,236–40,692,758 | 183.2 kb | Distal (>10kb) Multiome | 1088 | |
| chr1:40,708,827–40,709,450 | 200.5 kb | Distal (>10kb) Multiome | 526 | |
| chr1:40,783,386–40,784,649 | 275.2 kb | Distal (>10kb) Multiome | 448 | |
| chr1:40,802,183–40,803,007 | 293.9 kb | Distal (>10kb) Multiome | 455 |
Genomic view of the EXO5-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.