Transcription factors with Perturb-seq knockdown data for IRX2-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 = IRX2-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 IRX2-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 |
|---|---|---|---|---|
| chr5:2,743,144–2,743,640 | 8.5 kb | Proximal (<10kb) | 92 | |
| chr5:2,748,228–2,753,584 | 1.9 kb | Proximal (<10kb) Multiome | 431 | |
| chr5:2,753,690–2,754,301 | 1.6 kb | Proximal (<10kb) | 65 | |
| chr5:2,754,602–2,754,998 | 2.5 kb | Proximal (<10kb) | 68 | |
| chr5:2,755,092–2,755,382 | 3.0 kb | Proximal (<10kb) | 81 | |
| chr5:2,755,786–2,757,188 | 4.3 kb | Proximal (<10kb) Multiome | 252 | |
| chr5:2,780,391–2,780,966 | 28.5 kb | Distal (>10kb) Multiome | 237 |
Genomic view of the IRX2-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.