Transcription factors with Perturb-seq knockdown data for LINC01588. 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 = LINC01588 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 LINC01588, 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 |
|---|---|---|---|---|
| chr14:49,767,430–49,769,102 | 233.3 kb | Distal (>10kb) Multiome | 899 | |
| chr14:49,852,270–49,853,410 | 148.5 kb | Distal (>10kb) Multiome | 813 | |
| chr14:49,853,662–49,854,089 | 147.3 kb | Distal (>10kb) Multiome | 439 | |
| chr14:49,861,592–49,863,464 | 138.4 kb | Distal (>10kb) Multiome | 1038 | |
| chr14:49,867,745–49,868,682 | 133.0 kb | Distal (>10kb) Multiome | 699 | |
| chr14:49,892,363–49,894,019 | 108.3 kb | Distal (>10kb) Multiome | 981 | |
| chr14:49,999,227–49,999,663 | 1.6 kb | Proximal (<10kb) | 314 | |
| chr14:50,000,183–50,001,939 | 90 bp | At TSS Multiome | 669 | |
| chr14:50,003,207–50,003,779 | 1.9 kb | Proximal (<10kb) | 724 | |
| chr14:50,116,214–50,116,984 | 115.3 kb | Distal (>10kb) Multiome | 818 | |
| chr14:50,231,069–50,232,486 | 230.5 kb | Distal (>10kb) Multiome | 823 |
Genomic view of the LINC01588 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.