Transcription factors with Perturb-seq knockdown data for NUP50-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 = NUP50-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 NUP50-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 |
|---|---|---|---|---|
| chr22:45,006,916–45,010,513 | 153.7 kb | Distal (>10kb) Multiome | 522 | |
| chr22:45,052,140–45,053,598 | 110.8 kb | Distal (>10kb) Multiome | 132 | |
| chr22:45,159,739–45,159,956 | 3.8 kb | Proximal (<10kb) | 252 | |
| chr22:45,163,246–45,164,928 | 89 bp | At TSS Multiome | 938 | |
| chr22:45,239,931–45,241,595 | 77.2 kb | Distal (>10kb) Multiome | 482 | |
| chr22:45,267,970–45,269,955 | 105.5 kb | Distal (>10kb) Multiome | 600 | |
| chr22:45,309,117–45,310,833 | 146.0 kb | Distal (>10kb) Multiome | 821 | |
| chr22:45,413,403–45,414,177 | 249.9 kb | Distal (>10kb) Multiome | 453 | |
| chr22:45,435,549–45,435,992 | 272.0 kb | Distal (>10kb) Multiome | 461 | |
| chr22:45,443,959–45,444,454 | 280.5 kb | Distal (>10kb) Multiome | 24 |
Genomic view of the NUP50-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.