Transcription factors with Perturb-seq knockdown data for GVQW3. 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 = GVQW3 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 GVQW3, 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 |
|---|---|---|---|---|
| chr11:76,152,038–76,152,868 | 228.9 kb | Distal (>10kb) Multiome | 544 | |
| chr11:76,206,204–76,207,163 | 174.8 kb | Distal (>10kb) Multiome | 340 | |
| chr11:76,207,588–76,209,919 | 173.5 kb | Distal (>10kb) Multiome | 741 | |
| chr11:76,234,506–76,236,864 | 145.0 kb | Distal (>10kb) Multiome | 965 | |
| chr11:76,380,183–76,381,854 | 149 bp | At TSS Multiome | 862 | |
| chr11:76,444,290–76,446,139 | 64.7 kb | Distal (>10kb) Multiome | 903 | |
| chr11:76,554,474–76,555,062 | 173.5 kb | Distal (>10kb) Multiome | 45 | |
| chr11:76,624,568–76,625,315 | 243.7 kb | Distal (>10kb) Multiome | 105 | |
| chr11:76,670,486–76,671,227 | 289.5 kb | Distal (>10kb) Multiome | 303 |
Genomic view of the GVQW3 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.