Transcription factors with Perturb-seq knockdown data for LINC00485. 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 = LINC00485 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 LINC00485, 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 |
|---|---|---|---|---|
| chr12:102,816,922–102,817,319 | 7.1 kb | Proximal (<10kb) | 103 | |
| chr12:102,824,128–102,824,965 | at TSS | At TSS | 512 | |
| chr12:102,825,073–102,825,376 | 674 bp | At TSS | 25 | |
| chr12:102,834,182–102,834,360 | 9.8 kb | Proximal (<10kb) | 111 |
Genomic view of the LINC00485 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.