Transcription factors with Perturb-seq knockdown data for LINC01331. 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 = LINC01331 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 LINC01331, 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 |
|---|---|---|---|---|
| chr5:74,507,243–74,508,516 | 28.9 kb | Distal (>10kb) Multiome | 61 | |
| chr5:74,515,759–74,516,668 | 20.5 kb | Distal (>10kb) Multiome | 152 | |
| chr5:74,536,561–74,538,457 | 1.0 kb | Proximal (<10kb) Multiome | 426 | |
| chr5:74,543,139–74,544,218 | 6.9 kb | Proximal (<10kb) Multiome | 418 | |
| chr5:74,544,926–74,545,132 | 8.1 kb | Proximal (<10kb) | 27 | |
| chr5:74,555,513–74,556,350 | 19.3 kb | Distal (>10kb) Multiome | 100 | |
| chr5:74,625,689–74,626,268 | 89.2 kb | Distal (>10kb) Multiome | 148 | |
| chr5:74,631,192–74,632,778 | 94.7 kb | Distal (>10kb) Multiome | 598 | |
| chr5:74,639,680–74,641,657 | 104.0 kb | Distal (>10kb) Multiome | 999 | |
| chr5:74,684,927–74,685,413 | 148.4 kb | Distal (>10kb) Multiome | 765 | |
| chr5:74,766,697–74,767,753 | 230.4 kb | Distal (>10kb) Multiome | 976 |
Genomic view of the LINC01331 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.