Transcription factors with Perturb-seq knockdown data for AFDN-DT. 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 = AFDN-DT 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 AFDN-DT, 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 |
|---|---|---|---|---|
| chr6:167,652,499–167,653,099 | 174.0 kb | Distal (>10kb) Multiome | 151 | |
| chr6:167,678,066–167,679,144 | 148.0 kb | Distal (>10kb) Multiome | 370 | |
| chr6:167,744,803–167,745,904 | 81.5 kb | Distal (>10kb) Multiome | 117 | |
| chr6:167,750,915–167,751,671 | 75.6 kb | Distal (>10kb) Multiome | 387 | |
| chr6:167,825,427–167,828,107 | 1.1 kb | Proximal (<10kb) Multiome | 895 | |
| chr6:168,123,195–168,123,950 | 296.9 kb | Distal (>10kb) Multiome | 56 | |
| chr6:168,125,394–168,126,053 | 298.9 kb | Distal (>10kb) Multiome | 50 |
Genomic view of the AFDN-DT 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.