Transcription factors with Perturb-seq knockdown data for IRX4-AS1. 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 = IRX4-AS1 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 IRX4-AS1, 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 |
|---|---|---|---|---|
| chr5:1,874,486–1,877,084 | 6.2 kb | Proximal (<10kb) | 194 | |
| chr5:1,877,802–1,878,575 | 4.7 kb | Proximal (<10kb) | 71 | |
| chr5:1,880,966–1,883,137 | 176 bp | At TSS | 459 | |
| chr5:1,883,292–1,884,343 | at TSS | At TSS | 279 | |
| chr5:1,884,792–1,888,153 | 1.5 kb | Proximal (<10kb) | 186 |
Genomic view of the IRX4-AS1 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.