Transcription factors with Perturb-seq knockdown data for LINC01301. 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 = LINC01301 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 LINC01301, 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 |
|---|---|---|---|---|
| chr8:60,280,496–60,281,898 | 235.4 kb | Distal (>10kb) Multiome | 626 | |
| chr8:60,352,516–60,353,646 | 163.5 kb | Distal (>10kb) Multiome | 94 | |
| chr8:60,396,070–60,396,507 | 120.5 kb | Distal (>10kb) Multiome | 124 | |
| chr8:60,516,295–60,517,716 | 128 bp | At TSS Multiome | 833 | |
| chr8:60,575,730–60,576,435 | 59.3 kb | Distal (>10kb) Multiome | 231 | |
| chr8:60,651,471–60,652,894 | 135.4 kb | Distal (>10kb) Multiome | 899 | |
| chr8:60,653,001–60,654,152 | 136.9 kb | Distal (>10kb) Multiome | 520 | |
| chr8:60,676,007–60,676,774 | 159.4 kb | Distal (>10kb) Multiome | 159 | |
| chr8:60,678,041–60,680,775 | 161.8 kb | Distal (>10kb) Multiome | 761 |
Genomic view of the LINC01301 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.