Transcription factors with Perturb-seq knockdown data for LINC01090. 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 = LINC01090 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 LINC01090, 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 |
|---|---|---|---|---|
| chr2:188,172,925–188,173,454 | 211.1 kb | Distal (>10kb) Multiome | 93 | |
| chr2:188,181,184–188,182,353 | 202.6 kb | Distal (>10kb) Multiome | 267 | |
| chr2:188,278,467–188,279,061 | 8.6 kb | Proximal (<10kb) | 57 | |
| chr2:188,291,086–188,293,283 | 91.5 kb | Distal (>10kb) Multiome | 756 | |
| chr2:188,293,584–188,294,501 | 5.9 kb | Proximal (<10kb) | 228 | |
| chr2:188,303,125–188,304,072 | 80.5 kb | Distal (>10kb) Multiome | 323 | |
| chr2:188,425,940–188,426,884 | 42.0 kb | Distal (>10kb) Multiome | 79 |
Genomic view of the LINC01090 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.