Transcription factors with Perturb-seq knockdown data for LINC01896. 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 = LINC01896 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 LINC01896, 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 |
|---|---|---|---|---|
| chr18:78,972,886–78,974,829 | 3.1 kb | Proximal (<10kb) | 174 | |
| chr18:78,977,520–78,977,712 | 170 bp | At TSS | 20 | |
| chr18:78,977,822–78,978,220 | at TSS | At TSS | 33 | |
| chr18:78,978,336–78,981,364 | 2.2 kb | Proximal (<10kb) Multiome | 292 | |
| chr18:78,984,810–78,985,736 | 7.3 kb | Proximal (<10kb) Multiome | 173 | |
| chr18:78,986,067–78,986,483 | 8.2 kb | Proximal (<10kb) | 137 | |
| chr18:79,068,341–79,069,941 | 91.4 kb | Distal (>10kb) Multiome | 886 | |
| chr18:79,246,410–79,246,885 | 268.8 kb | Distal (>10kb) Multiome | 387 |
Genomic view of the LINC01896 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.