Transcription factors with Perturb-seq knockdown data for LINC01503. 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 = LINC01503 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 LINC01503, 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 |
|---|---|---|---|---|
| chr9:129,036,276–129,036,937 | 297.4 kb | Distal (>10kb) Multiome | 736 | |
| chr9:129,080,488–129,081,502 | 252.9 kb | Distal (>10kb) Multiome | 755 | |
| chr9:129,110,314–129,111,708 | 222.9 kb | Distal (>10kb) Multiome | 881 | |
| chr9:129,177,207–129,178,809 | 155.6 kb | Distal (>10kb) Multiome | 824 | |
| chr9:129,208,459–129,208,914 | 125.1 kb | Distal (>10kb) Multiome | 108 | |
| chr9:129,334,082–129,334,794 | 502 bp | At TSS Multiome | 928 | |
| chr9:129,413,561–129,414,426 | 80.0 kb | Distal (>10kb) Multiome | 753 | |
| chr9:129,495,758–129,497,403 | 163.1 kb | Distal (>10kb) Multiome | 973 | |
| chr9:129,557,196–129,557,935 | 223.7 kb | Distal (>10kb) Multiome | 718 | |
| chr9:129,626,055–129,626,580 | 292.3 kb | Distal (>10kb) Multiome | 825 |
Genomic view of the LINC01503 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.