Transcription factors with Perturb-seq knockdown data for LINC02699. 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 = LINC02699 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 LINC02699, 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 |
|---|---|---|---|---|
| chr11:25,486,152–25,487,911 | 248.0 kb | Distal (>10kb) Multiome | 181 | |
| chr11:25,696,315–25,697,422 | 37.9 kb | Distal (>10kb) Multiome | 88 | |
| chr11:25,731,147–25,731,367 | 3.4 kb | Proximal (<10kb) | 4 | |
| chr11:25,734,664–25,735,305 | at TSS | At TSS | 93 |
Genomic view of the LINC02699 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.