Transcription factors with Perturb-seq knockdown data for LINC03015. 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 = LINC03015 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 LINC03015, 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 |
|---|---|---|---|---|
| chr7:148,990–150,557 | 200 bp | At TSS Multiome | 592 | |
| chr7:191,841–193,053 | 42.8 kb | Distal (>10kb) Multiome | 475 | |
| chr7:321,971–322,829 | 172.8 kb | Distal (>10kb) Multiome | 351 | |
| chr7:332,380–333,313 | 183.3 kb | Distal (>10kb) Multiome | 649 |
Genomic view of the LINC03015 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.