Transcription factors with Perturb-seq knockdown data for GDNF-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 = GDNF-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 GDNF-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 |
|---|---|---|---|---|
| chr5:37,834,208–37,835,503 | 4.4 kb | Proximal (<10kb) | 201 | |
| chr5:37,836,271–37,837,978 | 1.9 kb | Proximal (<10kb) | 423 | |
| chr5:37,838,156–37,841,110 | 517 bp | At TSS Multiome | 656 | |
| chr5:37,843,417–37,844,859 | 4.2 kb | Proximal (<10kb) Multiome | 71 | |
| chr5:37,846,934–37,847,283 | 7.1 kb | Proximal (<10kb) | 30 | |
| chr5:37,848,023–37,848,439 | 8.1 kb | Proximal (<10kb) | 250 | |
| chr5:37,849,536–37,849,692 | 9.7 kb | Proximal (<10kb) | 11 |
Genomic view of the GDNF-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.