Transcription factors with Perturb-seq knockdown data for PAX8-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 = PAX8-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 PAX8-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 |
|---|---|---|---|---|
| chr2:113,156,906–113,158,052 | 78.0 kb | Distal (>10kb) Multiome | 573 | |
| chr2:113,198,565–113,199,598 | 36.3 kb | Distal (>10kb) Multiome | 775 | |
| chr2:113,203,959–113,204,456 | 31.3 kb | Distal (>10kb) Multiome | 490 | |
| chr2:113,235,144–113,235,881 | 95 bp | At TSS Multiome | 345 | |
| chr2:113,277,015–113,278,892 | 43.4 kb | Distal (>10kb) Multiome | 169 | |
| chr2:113,355,399–113,356,493 | 120.4 kb | Distal (>10kb) Multiome | 70 |
Genomic view of the PAX8-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.