Transcription factors with Perturb-seq knockdown data for SMC5-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 = SMC5-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 SMC5-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 |
|---|---|---|---|---|
| chr9:69,986,283–69,987,113 | 272.2 kb | Distal (>10kb) Multiome | 65 | |
| chr9:70,043,398–70,045,147 | 214.0 kb | Distal (>10kb) Multiome | 310 | |
| chr9:70,256,089–70,256,627 | 2.5 kb | Proximal (<10kb) Multiome | 140 | |
| chr9:70,257,343–70,257,810 | 1.1 kb | Proximal (<10kb) | 46 | |
| chr9:70,258,134–70,259,705 | 28 bp | At TSS Multiome | 919 | |
| chr9:70,412,007–70,414,534 | 155.4 kb | Distal (>10kb) Multiome | 982 | |
| chr9:70,418,125–70,421,420 | 161.9 kb | Distal (>10kb) Multiome | 1137 |
Genomic view of the SMC5-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.