Transcription factors with Perturb-seq knockdown data for LINC01237. 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 = LINC01237 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 LINC01237, 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 |
|---|---|---|---|---|
| chr2:241,609,833–241,610,860 | 271.0 kb | Distal (>10kb) Multiome | 755 | |
| chr2:241,636,378–241,638,145 | 244.0 kb | Distal (>10kb) Multiome | 934 | |
| chr2:241,686,350–241,687,468 | 194.4 kb | Distal (>10kb) Multiome HiCAR | 895 | |
| chr2:241,701,038–241,703,402 | 179.9 kb | Distal (>10kb) Multiome | 1081 | |
| chr2:241,734,032–241,735,695 | 146.8 kb | Distal (>10kb) Multiome | 977 | |
| chr2:241,843,948–241,844,465 | 37.1 kb | Distal (>10kb) Multiome | 429 | |
| chr2:241,878,093–241,878,278 | 3.1 kb | Proximal (<10kb) | 176 | |
| chr2:241,880,851–241,882,624 | 333 bp | At TSS Multiome | 665 | |
| chr2:241,950,625–241,951,263 | 69.6 kb | Distal (>10kb) Multiome | 367 | |
| chr2:242,088,158–242,089,208 | 207.3 kb | Distal (>10kb) Multiome | 493 |
Genomic view of the LINC01237 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.