Transcription factors with Perturb-seq knockdown data for H3-3A-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 = H3-3A-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 H3-3A-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 |
|---|---|---|---|---|
| chr1:225,768,775–225,769,570 | 292.7 kb | Distal (>10kb) Multiome | 313 | |
| chr1:225,771,884–225,772,638 | 289.5 kb | Distal (>10kb) Multiome | 488 | |
| chr1:225,777,167–225,778,412 | 284.1 kb | Distal (>10kb) Multiome | 942 | |
| chr1:225,809,711–225,811,548 | 251.7 kb | Distal (>10kb) Multiome | 654 | |
| chr1:225,845,424–225,846,556 | 215.9 kb | Distal (>10kb) Multiome | 416 | |
| chr1:225,881,255–225,884,173 | 179.6 kb | Distal (>10kb) Multiome | 879 | |
| chr1:225,888,552–225,889,596 | 172.7 kb | Distal (>10kb) Multiome | 185 | |
| chr1:225,898,735–225,899,922 | 162.4 kb | Distal (>10kb) Multiome | 335 | |
| chr1:225,903,782–225,904,454 | 157.9 kb | Distal (>10kb) Multiome | 40 | |
| chr1:225,908,825–225,909,327 | 152.9 kb | Distal (>10kb) Multiome | 101 | |
| chr1:225,910,978–225,911,799 | 150.5 kb | Distal (>10kb) Multiome | 344 | |
| chr1:225,923,776–225,924,773 | 137.6 kb | Distal (>10kb) Multiome | 960 | |
| chr1:225,939,444–225,939,998 | 122.2 kb | Distal (>10kb) Multiome | 62 | |
| chr1:225,945,518–225,946,038 | 116.1 kb | Distal (>10kb) Multiome | 172 | |
| chr1:225,948,616–225,949,435 | 112.8 kb | Distal (>10kb) Multiome | 175 | |
| chr1:225,957,776–225,958,797 | 103.5 kb | Distal (>10kb) Multiome | 175 | |
| chr1:225,999,043–226,000,159 | 62.4 kb | Distal (>10kb) Multiome | 969 | |
| chr1:226,061,587–226,063,333 | 626 bp | At TSS Multiome | 976 | |
| chr1:226,082,913–226,084,135 | 21.7 kb | Distal (>10kb) Multiome | 852 | |
| chr1:226,109,567–226,111,083 | 48.1 kb | Distal (>10kb) Multiome | 768 | |
| chr1:226,121,192–226,122,943 | 60.0 kb | Distal (>10kb) Multiome | 840 | |
| chr1:226,125,045–226,125,680 | 63.5 kb | Distal (>10kb) Multiome | 373 | |
| chr1:226,186,167–226,187,132 | 124.9 kb | Distal (>10kb) Multiome | 939 | |
| chr1:226,210,358–226,211,556 | 149.0 kb | Distal (>10kb) Multiome | 262 | |
| chr1:226,214,653–226,215,688 | 153.5 kb | Distal (>10kb) Multiome | 145 | |
| chr1:226,222,744–226,224,297 | 161.5 kb | Distal (>10kb) Multiome | 635 | |
| chr1:226,227,753–226,229,876 | 166.5 kb | Distal (>10kb) Multiome | 240 | |
| chr1:226,308,507–226,309,932 | 247.4 kb | Distal (>10kb) Multiome | 915 |
Genomic view of the H3-3A-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.