Transcription factors with Perturb-seq knockdown data for LINC00462. 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 = LINC00462 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 LINC00462, 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 |
|---|---|---|---|---|
| chr13:48,586,635–48,587,172 | 3.4 kb | Proximal (<10kb) | 89 | |
| chr13:48,590,517–48,590,820 | at TSS | At TSS | 29 | |
| chr13:48,592,097–48,592,322 | 1.5 kb | Proximal (<10kb) | 26 | |
| chr13:48,594,313–48,594,741 | 3.7 kb | Proximal (<10kb) | 46 | |
| chr13:48,595,500–48,595,950 | 4.9 kb | Proximal (<10kb) | 186 |
Genomic view of the LINC00462 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.