Transcription factors with Perturb-seq knockdown data for LINC01385. 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 = LINC01385 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 LINC01385, 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 |
|---|---|---|---|---|
| chr5:73,443,832–73,444,744 | 6.8 kb | Proximal (<10kb) | 212 | |
| chr5:73,446,878–73,449,160 | 2.3 kb | Proximal (<10kb) | 568 | |
| chr5:73,451,190–73,451,907 | at TSS | At TSS | 413 | |
| chr5:73,454,436–73,454,742 | 2.9 kb | Proximal (<10kb) | 164 |
Genomic view of the LINC01385 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.