Transcription factors with Perturb-seq knockdown data for LINC01980. 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 = LINC01980 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 LINC01980, 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 |
|---|---|---|---|---|
| chr3:27,532,531–27,534,712 | 287.5 kb | Distal (>10kb) Multiome | 739 | |
| chr3:27,632,489–27,633,437 | 188.5 kb | Distal (>10kb) Multiome | 378 | |
| chr3:27,680,718–27,681,875 | 140.3 kb | Distal (>10kb) Multiome | 532 | |
| chr3:27,711,660–27,716,254 | 107.4 kb | Distal (>10kb) Multiome | 783 | |
| chr3:27,720,744–27,724,896 | 98.7 kb | Distal (>10kb) Multiome | 708 | |
| chr3:27,727,875–27,731,045 | 91.1 kb | Distal (>10kb) Multiome | 446 | |
| chr3:27,813,309–27,814,049 | 7.4 kb | Proximal (<10kb) | 104 | |
| chr3:27,821,426–27,821,590 | at TSS | At TSS | 4 | |
| chr3:28,348,014–28,349,873 | 527.5 kb | Distal (>10kb) Multiome HiCAR | 1118 |
Genomic view of the LINC01980 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.