Transcription factors with Perturb-seq knockdown data for LINC01465. 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 = LINC01465 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 LINC01465, 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 |
|---|---|---|---|---|
| chr12:62,602,250–62,603,979 | at TSS | At TSS | 1165 | |
| chr12:62,604,879–62,605,185 | 1.2 kb | Proximal (<10kb) | 93 | |
| chr12:62,606,116–62,606,362 | 2.4 kb | Proximal (<10kb) | 40 | |
| chr12:62,606,578–62,607,129 | 2.9 kb | Proximal (<10kb) | 53 | |
| chr12:62,608,556–62,609,392 | 4.9 kb | Proximal (<10kb) | 34 | |
| chr12:62,609,917–62,610,248 | 6.2 kb | Proximal (<10kb) | 15 | |
| chr12:62,610,632–62,611,303 | 6.9 kb | Proximal (<10kb) | 10 | |
| chr12:62,611,447–62,611,794 | 7.8 kb | Proximal (<10kb) | 3 | |
| chr12:62,611,911–62,612,510 | 8.2 kb | Proximal (<10kb) | 11 |
Genomic view of the LINC01465 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.