Transcription factors with Perturb-seq knockdown data for LINC01091. 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 = LINC01091 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 LINC01091, 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 |
|---|---|---|---|---|
| chr4:123,349,203–123,350,874 | 299.5 kb | Distal (>10kb) Multiome HiCAR | 581 | |
| chr4:123,378,654–123,379,405 | 270.8 kb | Distal (>10kb) Multiome | 132 | |
| chr4:123,396,436–123,400,075 | 251.3 kb | Distal (>10kb) Multiome HiCAR | 1045 | |
| chr4:123,418,283–123,419,055 | 231.2 kb | Distal (>10kb) Multiome HiCAR | 603 | |
| chr4:123,443,807–123,444,762 | 205.4 kb | Distal (>10kb) Multiome HiCAR | 592 | |
| chr4:123,504,903–123,506,889 | 144.0 kb | Distal (>10kb) Multiome | 863 | |
| chr4:123,546,598–123,547,820 | 102.5 kb | Distal (>10kb) Multiome | 350 | |
| chr4:123,553,702–123,554,327 | 95.9 kb | Distal (>10kb) Multiome | 123 | |
| chr4:123,647,808–123,648,270 | 2.0 kb | Proximal (<10kb) | 71 | |
| chr4:123,649,322–123,649,508 | 734 bp | At TSS | 89 | |
| chr4:123,649,658–123,650,359 | at TSS | At TSS | 397 | |
| chr4:123,659,844–123,660,056 | 9.6 kb | Proximal (<10kb) | 97 | |
| chr4:123,694,470–123,695,234 | 45.0 kb | Distal (>10kb) Multiome | 118 |
Genomic view of the LINC01091 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.