Transcription factors with Perturb-seq knockdown data for LINC01956. 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 = LINC01956 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 LINC01956, 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 |
|---|---|---|---|---|
| chr2:118,835,006–118,835,648 | at TSS | At TSS | 102 | |
| chr2:118,835,822–118,836,450 | 712 bp | At TSS | 131 | |
| chr2:118,841,828–118,842,164 | 6.7 kb | Proximal (<10kb) | 80 | |
| chr2:118,842,787–118,843,412 | 7.7 kb | Proximal (<10kb) | 81 |
Genomic view of the LINC01956 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.