Transcription factors with Perturb-seq knockdown data for LMX1B-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 = LMX1B-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 LMX1B-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 |
|---|---|---|---|---|
| chr9:126,326,281–126,327,488 | 285.6 kb | Distal (>10kb) Multiome | 391 | |
| chr9:126,499,263–126,500,429 | 113.0 kb | Distal (>10kb) Multiome | 380 | |
| chr9:126,500,475–126,501,408 | 111.4 kb | Distal (>10kb) Multiome | 410 | |
| chr9:126,513,839–126,514,723 | 98.2 kb | Distal (>10kb) Multiome | 300 | |
| chr9:126,558,118–126,558,952 | 54.1 kb | Distal (>10kb) Multiome | 249 | |
| chr9:126,563,772–126,564,725 | 48.2 kb | Distal (>10kb) Multiome | 196 | |
| chr9:126,611,172–126,613,546 | 788 bp | At TSS Multiome | 435 | |
| chr9:126,613,728–126,614,227 | 1.4 kb | Proximal (<10kb) Multiome | 310 | |
| chr9:126,615,045–126,616,083 | 2.5 kb | Proximal (<10kb) | 172 | |
| chr9:126,618,749–126,619,087 | 6.2 kb | Proximal (<10kb) | 76 | |
| chr9:126,638,337–126,639,289 | 26.3 kb | Distal (>10kb) Multiome | 121 | |
| chr9:126,642,527–126,643,462 | 30.6 kb | Distal (>10kb) Multiome | 236 | |
| chr9:126,651,890–126,653,007 | 39.8 kb | Distal (>10kb) Multiome | 194 | |
| chr9:126,661,485–126,662,054 | 49.2 kb | Distal (>10kb) Multiome HiCAR | 301 | |
| chr9:126,664,997–126,665,774 | 52.8 kb | Distal (>10kb) Multiome HiCAR | 206 | |
| chr9:126,676,328–126,677,650 | 64.4 kb | Distal (>10kb) Multiome | 280 | |
| chr9:126,702,378–126,702,753 | 90.2 kb | Distal (>10kb) Multiome | 106 | |
| chr9:126,705,159–126,705,769 | 92.9 kb | Distal (>10kb) Multiome | 410 | |
| chr9:126,722,279–126,723,703 | 110.1 kb | Distal (>10kb) Multiome | 486 | |
| chr9:126,781,625–126,782,080 | 169.4 kb | Distal (>10kb) Multiome | 311 | |
| chr9:126,804,620–126,805,548 | 192.5 kb | Distal (>10kb) Multiome | 787 | |
| chr9:126,860,094–126,861,384 | 248.0 kb | Distal (>10kb) Multiome | 736 |
Genomic view of the LMX1B-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.