Transcription factors with Perturb-seq knockdown data for VPS13B-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 = VPS13B-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 VPS13B-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 |
|---|---|---|---|---|
| chr8:98,825,100–98,826,604 | 187.1 kb | Distal (>10kb) Multiome | 692 | |
| chr8:98,939,766–98,942,896 | 71.8 kb | Distal (>10kb) Multiome | 801 | |
| chr8:98,944,134–98,945,767 | 68.6 kb | Distal (>10kb) Multiome | 736 | |
| chr8:98,947,167–98,948,851 | 65.1 kb | Distal (>10kb) Multiome | 160 | |
| chr8:98,951,052–98,951,938 | 61.5 kb | Distal (>10kb) Multiome | 211 | |
| chr8:98,972,223–98,972,842 | 40.6 kb | Distal (>10kb) Multiome | 201 | |
| chr8:98,973,362–98,974,798 | 38.6 kb | Distal (>10kb) Multiome | 321 | |
| chr8:99,012,513–99,013,978 | 194 bp | At TSS Multiome | 985 |
Genomic view of the VPS13B-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.