Transcription factors with Perturb-seq knockdown data for LINC01315. 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 = LINC01315 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 LINC01315, 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 |
|---|---|---|---|---|
| chr22:40,856,149–40,857,393 | 1512.4 kb | Distal (>10kb) Multiome HiCAR | 950 | |
| chr22:42,070,303–42,071,253 | 298.4 kb | Distal (>10kb) Multiome | 833 | |
| chr22:42,074,171–42,074,703 | 294.9 kb | Distal (>10kb) Multiome | 178 | |
| chr22:42,079,194–42,080,293 | 289.5 kb | Distal (>10kb) Multiome | 872 | |
| chr22:42,090,032–42,091,609 | 278.3 kb | Distal (>10kb) Multiome | 910 | |
| chr22:42,269,385–42,271,172 | 99.7 kb | Distal (>10kb) Multiome | 751 | |
| chr22:42,343,251–42,344,201 | 25.6 kb | Distal (>10kb) Multiome | 220 | |
| chr22:42,344,438–42,344,933 | 24.6 kb | Distal (>10kb) Multiome | 162 | |
| chr22:42,365,301–42,366,142 | 3.7 kb | Proximal (<10kb) Multiome | 197 | |
| chr22:42,368,263–42,369,908 | 95 bp | At TSS Multiome | 592 | |
| chr22:42,437,555–42,438,618 | 68.7 kb | Distal (>10kb) Multiome | 501 | |
| chr22:42,444,134–42,444,723 | 75.2 kb | Distal (>10kb) Multiome | 574 | |
| chr22:42,499,840–42,501,072 | 131.2 kb | Distal (>10kb) Multiome | 356 | |
| chr22:42,519,544–42,520,134 | 150.6 kb | Distal (>10kb) Multiome | 330 | |
| chr22:42,553,476–42,554,267 | 184.6 kb | Distal (>10kb) Multiome | 514 | |
| chr22:42,581,750–42,582,381 | 212.9 kb | Distal (>10kb) Multiome | 290 | |
| chr22:42,614,291–42,616,423 | 246.1 kb | Distal (>10kb) Multiome | 1280 | |
| chr22:42,648,972–42,649,906 | 280.2 kb | Distal (>10kb) Multiome | 625 | |
| chr22:42,662,035–42,662,743 | 293.0 kb | Distal (>10kb) Multiome | 468 |
Genomic view of the LINC01315 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.