Transcription factors with Perturb-seq knockdown data for LINC00237. 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 = LINC00237 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 LINC00237, 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 |
|---|---|---|---|---|
| chr20:21,096,338–21,096,539 | 4.7 kb | Proximal (<10kb) | 180 | |
| chr20:21,100,225–21,100,533 | 750 bp | At TSS | 182 | |
| chr20:21,100,747–21,102,570 | at TSS | At TSS | 378 | |
| chr20:21,102,695–21,103,438 | 1.4 kb | Proximal (<10kb) | 165 | |
| chr20:21,104,397–21,104,630 | 3.1 kb | Proximal (<10kb) | 26 | |
| chr20:21,105,059–21,106,031 | 3.8 kb | Proximal (<10kb) | 99 | |
| chr20:21,106,103–21,106,394 | 4.8 kb | Proximal (<10kb) | 71 |
Genomic view of the LINC00237 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.