Transcription factors with Perturb-seq knockdown data for CLN8-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 = CLN8-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 CLN8-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 |
|---|---|---|---|---|
| chr8:1,657,940–1,658,466 | 106.2 kb | Distal (>10kb) Multiome | 132 | |
| chr8:1,700,997–1,701,729 | 63.0 kb | Distal (>10kb) Multiome | 300 | |
| chr8:1,755,576–1,755,881 | 7.5 kb | Proximal (<10kb) | 390 | |
| chr8:1,758,564–1,759,241 | 4.1 kb | Proximal (<10kb) | 124 | |
| chr8:1,759,396–1,759,708 | 3.6 kb | Proximal (<10kb) | 41 | |
| chr8:1,762,735–1,763,431 | at TSS | At TSS | 366 | |
| chr8:1,763,611–1,765,449 | 675 bp | At TSS Multiome | 769 | |
| chr8:1,765,557–1,766,098 | 2.2 kb | Proximal (<10kb) | 71 | |
| chr8:1,801,852–1,803,309 | 38.4 kb | Distal (>10kb) Multiome | 182 | |
| chr8:1,816,753–1,817,762 | 52.8 kb | Distal (>10kb) Multiome | 113 | |
| chr8:1,823,171–1,824,563 | 59.4 kb | Distal (>10kb) Multiome | 514 | |
| chr8:1,973,408–1,974,934 | 209.5 kb | Distal (>10kb) Multiome | 298 | |
| chr8:2,000,722–2,003,182 | 237.5 kb | Distal (>10kb) Multiome | 414 | |
| chr8:2,063,936–2,064,980 | 300.3 kb | Distal (>10kb) Multiome | 138 |
Genomic view of the CLN8-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.