Transcription factors with Perturb-seq knockdown data for RNASEH1-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 = RNASEH1-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 RNASEH1-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 |
|---|---|---|---|---|
| chr2:1,823,112–1,823,997 | 1735.0 kb | Distal (>10kb) Multiome HiCAR | 143 | |
| chr2:3,265,176–3,267,080 | 292.4 kb | Distal (>10kb) Multiome | 214 | |
| chr2:3,302,656–3,304,274 | 254.8 kb | Distal (>10kb) Multiome | 611 | |
| chr2:3,377,329–3,378,629 | 180.5 kb | Distal (>10kb) Multiome | 975 | |
| chr2:3,379,318–3,380,419 | 178.7 kb | Distal (>10kb) Multiome | 1029 | |
| chr2:3,482,920–3,483,746 | 75.0 kb | Distal (>10kb) Multiome | 137 | |
| chr2:3,518,104–3,520,209 | 39.2 kb | Distal (>10kb) Multiome | 1083 | |
| chr2:3,557,826–3,559,338 | 8 bp | At TSS Multiome | 1106 | |
| chr2:3,559,440–3,559,598 | 973 bp | At TSS | 83 | |
| chr2:3,574,766–3,576,282 | 16.8 kb | Distal (>10kb) Multiome | 1145 | |
| chr2:3,650,709–3,651,305 | 92.7 kb | Distal (>10kb) Multiome | 403 | |
| chr2:3,651,453–3,652,406 | 93.7 kb | Distal (>10kb) Multiome | 610 | |
| chr2:3,702,909–3,704,344 | 145.0 kb | Distal (>10kb) Multiome | 203 |
Genomic view of the RNASEH1-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.