Transcription factors with Perturb-seq knockdown data for NINJ2-AS1. 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 = NINJ2-AS1 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 NINJ2-AS1, 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 |
|---|---|---|---|---|
| chr12:459,530–460,568 | 182.8 kb | Distal (>10kb) Multiome | 338 | |
| chr12:509,461–510,940 | 132.2 kb | Distal (>10kb) Multiome | 399 | |
| chr12:569,602–571,188 | 72.7 kb | Distal (>10kb) Multiome HiCAR | 800 | |
| chr12:642,622–643,509 | 328 bp | At TSS Multiome | 556 | |
| chr12:669,635–670,134 | 27.2 kb | Distal (>10kb) Multiome | 33 | |
| chr12:740,453–741,486 | 98.3 kb | Distal (>10kb) Multiome | 114 | |
| chr12:751,121–751,920 | 108.6 kb | Distal (>10kb) Multiome | 860 | |
| chr12:752,026–753,528 | 109.9 kb | Distal (>10kb) Multiome | 747 |
Genomic view of the NINJ2-AS1 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.