Transcription factors with Perturb-seq knockdown data for LINC02418. 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 = LINC02418 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 LINC02418, 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 |
|---|---|---|---|---|
| chr12:130,042,125–130,042,548 | at TSS | At TSS | 167 | |
| chr12:130,044,614–130,045,702 | 2.2 kb | Proximal (<10kb) | 347 | |
| chr12:130,047,377–130,047,594 | 5.0 kb | Proximal (<10kb) | 59 | |
| chr12:130,053,665–130,053,899 | 8.6 kb | Proximal (<10kb) | 90 |
Genomic view of the LINC02418 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.