Transcription factors with Perturb-seq knockdown data for LINC01013. 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 = LINC01013 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 LINC01013, 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 |
|---|---|---|---|---|
| chr6:131,627,705–131,628,707 | 281.9 kb | Distal (>10kb) Multiome | 1165 | |
| chr6:131,765,030–131,766,034 | 144.8 kb | Distal (>10kb) Multiome | 365 | |
| chr6:131,807,370–131,808,750 | 102.2 kb | Distal (>10kb) Multiome | 725 | |
| chr6:131,859,548–131,860,162 | 50.3 kb | Distal (>10kb) Multiome | 117 | |
| chr6:131,901,512–131,901,935 | 8.3 kb | Proximal (<10kb) | 11 | |
| chr6:131,903,217–131,903,578 | 6.6 kb | Proximal (<10kb) | 38 | |
| chr6:131,903,825–131,904,159 | 6.0 kb | Proximal (<10kb) | 3 | |
| chr6:131,906,798–131,907,734 | 2.5 kb | Proximal (<10kb) | 17 | |
| chr6:131,910,058–131,910,258 | at TSS | At TSS | 243 | |
| chr6:131,915,044–131,915,745 | 4.9 kb | Proximal (<10kb) | 269 | |
| chr6:131,917,507–131,917,739 | 7.3 kb | Proximal (<10kb) | 76 | |
| chr6:131,917,888–131,918,061 | 7.7 kb | Proximal (<10kb) | 98 | |
| chr6:131,918,198–131,919,385 | 8.0 kb | Proximal (<10kb) | 86 | |
| chr6:131,949,770–131,951,936 | 41.2 kb | Distal (>10kb) Multiome | 1038 |
Genomic view of the LINC01013 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.