Transcription factors with Perturb-seq knockdown data for LINC00491. 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 = LINC00491 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 LINC00491, 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 |
|---|---|---|---|---|
| chr5:102,661,339–102,661,653 | 9.8 kb | Proximal (<10kb) | 1 | |
| chr5:102,664,583–102,665,420 | 6.0 kb | Proximal (<10kb) | 22 | |
| chr5:102,667,912–102,669,066 | 2.4 kb | Proximal (<10kb) | 177 | |
| chr5:102,670,149–102,670,689 | 774 bp | At TSS | 153 | |
| chr5:102,671,168–102,672,071 | at TSS | At TSS | 182 | |
| chr5:102,681,459–102,681,865 | 10.0 kb | Proximal (<10kb) | 219 | |
| chr5:102,753,823–102,756,422 | 83.7 kb | Distal (>10kb) Multiome | 821 | |
| chr5:102,807,318–102,808,489 | 136.4 kb | Distal (>10kb) Multiome | 297 | |
| chr5:102,865,225–102,866,661 | 194.4 kb | Distal (>10kb) Multiome | 621 | |
| chr5:103,119,392–103,121,169 | 448.7 kb | Distal (>10kb) Multiome HiCAR | 1050 | |
| chr5:103,223,049–103,225,117 | 553.3 kb | Distal (>10kb) Multiome HiCAR | 339 |
Genomic view of the LINC00491 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.