Transcription factors with Perturb-seq knockdown data for LINC01353. 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 = LINC01353 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 LINC01353, 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 |
|---|---|---|---|---|
| chr1:203,267,310–203,267,938 | 5.3 kb | Proximal (<10kb) | 432 | |
| chr1:203,268,935–203,269,361 | 3.9 kb | Proximal (<10kb) | 253 | |
| chr1:203,271,123–203,271,280 | 1.9 kb | Proximal (<10kb) | 146 | |
| chr1:203,273,131–203,273,728 | at TSS | At TSS | 579 |
Genomic view of the LINC01353 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.