Transcription factors with Perturb-seq knockdown data for LINC01108. 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 = LINC01108 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 LINC01108, 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 |
|---|---|---|---|---|
| chr6:14,117,134–14,118,295 | 167.8 kb | Distal (>10kb) Multiome | 640 | |
| chr6:14,210,686–14,212,342 | 74.2 kb | Distal (>10kb) Multiome | 895 | |
| chr6:14,296,854–14,297,404 | 11.7 kb | Distal (>10kb) Multiome | 23 | |
| chr6:14,383,618–14,384,936 | 98.9 kb | Distal (>10kb) Multiome | 174 | |
| chr6:14,544,040–14,544,995 | 259.2 kb | Distal (>10kb) Multiome | 137 | |
| chr6:15,434,237–15,434,856 | 1149.1 kb | Distal (>10kb) Multiome HiCAR | 263 | |
| chr6:15,460,916–15,461,553 | 1175.8 kb | Distal (>10kb) Multiome HiCAR | 161 | |
| chr6:16,238,170–16,238,814 | 1953.1 kb | Distal (>10kb) Multiome HiCAR | 433 |
Genomic view of the LINC01108 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.