Transcription factors with Perturb-seq knockdown data for KLHDC4. 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 = KLHDC4 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 KLHDC4, 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 |
|---|---|---|---|---|
| chr16:87,492,670–87,493,484 | 272.9 kb | Distal (>10kb) Multiome | 652 | |
| chr16:87,601,726–87,602,537 | 163.6 kb | Distal (>10kb) Multiome | 217 | |
| chr16:87,765,695–87,766,281 | 90 bp | At TSS Multiome | 846 | |
| chr16:87,777,440–87,778,323 | 12.0 kb | Distal (>10kb) Multiome | 751 | |
| chr16:87,778,885–87,779,577 | 13.4 kb | Distal (>10kb) Multiome | 990 | |
| chr16:87,868,765–87,870,102 | 103.6 kb | Distal (>10kb) Multiome | 674 | |
| chr16:87,870,439–87,871,185 | 104.9 kb | Distal (>10kb) Multiome HiCAR | 528 | |
| chr16:87,950,629–87,952,113 | 185.3 kb | Distal (>10kb) Multiome | 1107 |
Genomic view of the KLHDC4 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.