Transcription factors with Perturb-seq knockdown data for CCDC30. 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 = CCDC30 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 CCDC30, 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 |
|---|---|---|---|---|
| chr1:42,334,342–42,336,315 | 128.0 kb | Distal (>10kb) Multiome | 1056 | |
| chr1:42,380,246–42,381,273 | 82.5 kb | Distal (>10kb) Multiome | 485 | |
| chr1:42,455,770–42,457,060 | 6.9 kb | Proximal (<10kb) Multiome | 881 | |
| chr1:42,462,753–42,463,783 | 72 bp | At TSS Multiome | 581 | |
| chr1:42,657,991–42,659,026 | 195.1 kb | Distal (>10kb) Multiome | 952 | |
| chr1:42,681,723–42,683,347 | 219.1 kb | Distal (>10kb) Multiome | 924 | |
| chr1:42,739,796–42,740,734 | 277.1 kb | Distal (>10kb) Multiome | 365 |
Genomic view of the CCDC30 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.