Transcription factors with Perturb-seq knockdown data for PAXIP1-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 = PAXIP1-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 PAXIP1-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 |
|---|---|---|---|---|
| chr7:154,743,965–154,745,278 | 259.0 kb | Distal (>10kb) Multiome | 226 | |
| chr7:154,793,829–154,794,814 | 209.1 kb | Distal (>10kb) Multiome | 224 | |
| chr7:154,868,340–154,869,682 | 134.4 kb | Distal (>10kb) Multiome | 166 | |
| chr7:154,913,593–154,914,442 | 89.5 kb | Distal (>10kb) Multiome | 604 | |
| chr7:154,917,840–154,919,124 | 84.7 kb | Distal (>10kb) Multiome | 61 | |
| chr7:154,995,034–154,995,460 | 8.0 kb | Proximal (<10kb) | 71 | |
| chr7:154,996,817–154,997,448 | 6.4 kb | Proximal (<10kb) Multiome | 86 | |
| chr7:155,002,253–155,004,210 | 220 bp | At TSS Multiome | 890 | |
| chr7:155,007,985–155,008,232 | 4.6 kb | Proximal (<10kb) | 122 | |
| chr7:155,009,659–155,009,835 | 6.2 kb | Proximal (<10kb) | 51 | |
| chr7:155,069,955–155,070,729 | 66.8 kb | Distal (>10kb) Multiome | 1085 | |
| chr7:155,106,895–155,108,511 | 103.8 kb | Distal (>10kb) Multiome | 185 | |
| chr7:155,296,732–155,299,686 | 294.3 kb | Distal (>10kb) Multiome HiCAR | 860 |
Genomic view of the PAXIP1-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.