Transcription factors with Perturb-seq knockdown data for TRANK1. 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 = TRANK1 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 TRANK1, 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 |
|---|---|---|---|---|
| chr3:36,763,790–36,765,063 | 180.5 kb | Distal (>10kb) Multiome | 293 | |
| chr3:36,943,704–36,946,013 | 290 bp | At TSS Multiome | 388 | |
| chr3:36,965,264–36,965,767 | 20.7 kb | Distal (>10kb) Multiome | 89 | |
| chr3:37,175,555–37,176,875 | 231.5 kb | Distal (>10kb) Multiome | 907 | |
| chr3:37,242,726–37,244,363 | 298.4 kb | Distal (>10kb) Multiome | 969 |
Genomic view of the TRANK1 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.