Transcription factors with Perturb-seq knockdown data for PITX1-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 = PITX1-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 PITX1-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 |
|---|---|---|---|---|
| chr5:134,737,780–134,739,410 | 294.9 kb | Distal (>10kb) Multiome | 1014 | |
| chr5:134,758,294–134,759,262 | 274.6 kb | Distal (>10kb) Multiome | 1011 | |
| chr5:134,845,740–134,846,572 | 187.3 kb | Distal (>10kb) Multiome | 923 | |
| chr5:134,873,977–134,874,865 | 158.9 kb | Distal (>10kb) Multiome | 978 | |
| chr5:134,904,363–134,905,880 | 128.4 kb | Distal (>10kb) Multiome | 1005 | |
| chr5:134,990,227–134,990,750 | 42.9 kb | Distal (>10kb) Multiome | 31 | |
| chr5:135,027,489–135,027,710 | 5.7 kb | Proximal (<10kb) | 81 | |
| chr5:135,027,861–135,028,205 | 5.2 kb | Proximal (<10kb) | 79 | |
| chr5:135,028,731–135,029,454 | 3.9 kb | Proximal (<10kb) | 166 | |
| chr5:135,030,853–135,031,806 | 1.9 kb | Proximal (<10kb) Multiome | 138 | |
| chr5:135,032,878–135,033,426 | at TSS | At TSS | 412 | |
| chr5:135,033,567–135,034,894 | 1.2 kb | Proximal (<10kb) Multiome | 630 | |
| chr5:135,039,338–135,041,162 | 6.0 kb | Proximal (<10kb) | 207 | |
| chr5:135,149,740–135,150,607 | 116.9 kb | Distal (>10kb) Multiome | 86 | |
| chr5:135,191,031–135,191,899 | 158.2 kb | Distal (>10kb) Multiome HiCAR | 728 | |
| chr5:135,307,347–135,308,154 | 274.4 kb | Distal (>10kb) Multiome | 124 |
Genomic view of the PITX1-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.