Transcription factors with Perturb-seq knockdown data for ITGA9-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 = ITGA9-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 ITGA9-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 |
|---|---|---|---|---|
| chr3:37,693,741–37,694,487 | 167.7 kb | Distal (>10kb) Multiome | 152 | |
| chr3:37,855,450–37,855,671 | 6.1 kb | Proximal (<10kb) | 268 | |
| chr3:37,859,865–37,862,804 | 1.2 kb | Proximal (<10kb) Multiome | 1005 | |
| chr3:37,986,618–37,987,603 | 125.3 kb | Distal (>10kb) Multiome HiCAR | 525 | |
| chr3:37,993,686–37,994,594 | 132.5 kb | Distal (>10kb) Multiome HiCAR | 519 | |
| chr3:37,998,336–37,999,630 | 137.3 kb | Distal (>10kb) Multiome HiCAR | 510 | |
| chr3:38,003,084–38,004,028 | 141.7 kb | Distal (>10kb) Multiome | 352 | |
| chr3:38,023,878–38,025,927 | 163.1 kb | Distal (>10kb) Multiome | 762 | |
| chr3:38,028,710–38,030,184 | 167.9 kb | Distal (>10kb) Multiome | 378 | |
| chr3:38,039,093–38,039,944 | 177.6 kb | Distal (>10kb) Multiome | 357 | |
| chr3:38,136,419–38,139,307 | 277.0 kb | Distal (>10kb) Multiome | 989 |
Genomic view of the ITGA9-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.