Transcription factors with Perturb-seq knockdown data for LINC00886. 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 = LINC00886 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 LINC00886, 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 |
|---|---|---|---|---|
| chr3:156,554,637–156,555,736 | 196.3 kb | Distal (>10kb) Multiome | 851 | |
| chr3:156,605,674–156,606,640 | 145.5 kb | Distal (>10kb) Multiome | 453 | |
| chr3:156,628,812–156,629,757 | 122.2 kb | Distal (>10kb) Multiome | 108 | |
| chr3:156,673,773–156,675,967 | 77.1 kb | Distal (>10kb) Multiome | 1144 | |
| chr3:156,739,496–156,740,549 | 11.4 kb | Distal (>10kb) Multiome | 99 | |
| chr3:156,749,172–156,749,512 | 2.0 kb | Proximal (<10kb) | 165 | |
| chr3:156,750,213–156,752,034 | at TSS | At TSS | 356 | |
| chr3:156,761,057–156,761,397 | 9.5 kb | Proximal (<10kb) | 90 | |
| chr3:156,815,908–156,817,589 | 65.5 kb | Distal (>10kb) Multiome | 769 | |
| chr3:156,825,909–156,827,101 | 74.8 kb | Distal (>10kb) Multiome | 901 | |
| chr3:156,897,559–156,898,592 | 146.5 kb | Distal (>10kb) Multiome | 147 |
Genomic view of the LINC00886 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.