Transcription factors with Perturb-seq knockdown data for LINC03011. 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 = LINC03011 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 LINC03011, 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 |
|---|---|---|---|---|
| chr7:66,043,712–66,044,711 | 449.3 kb | Distal (>10kb) Multiome HiCAR | 136 | |
| chr7:66,204,762–66,205,981 | 288.4 kb | Distal (>10kb) Multiome | 816 | |
| chr7:66,413,302–66,414,074 | 80.0 kb | Distal (>10kb) Multiome | 440 | |
| chr7:66,493,259–66,494,185 | 11 bp | At TSS Multiome | 849 | |
| chr7:66,591,768–66,593,058 | 98.7 kb | Distal (>10kb) Multiome | 849 | |
| chr7:66,627,961–66,629,582 | 135.2 kb | Distal (>10kb) Multiome | 896 | |
| chr7:66,654,134–66,655,326 | 160.9 kb | Distal (>10kb) Multiome | 1021 | |
| chr7:66,681,738–66,682,647 | 188.4 kb | Distal (>10kb) Multiome | 840 | |
| chr7:66,740,305–66,741,524 | 247.0 kb | Distal (>10kb) Multiome | 898 |
Genomic view of the LINC03011 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.