Transcription factors with Perturb-seq knockdown data for LINC00173. 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 = LINC00173 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 LINC00173, 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 |
|---|---|---|---|---|
| chr12:116,276,900–116,278,375 | 255.7 kb | Distal (>10kb) Multiome | 610 | |
| chr12:116,426,349–116,428,797 | 104.8 kb | Distal (>10kb) Multiome | 557 | |
| chr12:116,506,096–116,506,922 | 26.9 kb | Distal (>10kb) Multiome | 123 | |
| chr12:116,508,269–116,509,006 | 24.9 kb | Distal (>10kb) Multiome | 291 | |
| chr12:116,533,039–116,534,478 | 2 bp | At TSS Multiome | 430 | |
| chr12:116,694,557–116,695,015 | 161.4 kb | Distal (>10kb) Multiome | 37 | |
| chr12:116,697,179–116,697,642 | 164.0 kb | Distal (>10kb) Multiome | 129 | |
| chr12:116,737,743–116,738,634 | 204.8 kb | Distal (>10kb) Multiome | 852 | |
| chr12:116,818,976–116,819,922 | 286.1 kb | Distal (>10kb) Multiome | 760 |
Genomic view of the LINC00173 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.