Transcription factors with Perturb-seq knockdown data for HCG18. 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 = HCG18 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 HCG18, 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 |
|---|---|---|---|---|
| chr6:30,060,737–30,061,999 | 265.6 kb | Distal (>10kb) Multiome | 973 | |
| chr6:30,066,588–30,067,716 | 259.7 kb | Distal (>10kb) Multiome | 952 | |
| chr6:30,101,800–30,102,573 | 224.7 kb | Distal (>10kb) Multiome | 644 | |
| chr6:30,103,094–30,103,626 | 223.5 kb | Distal (>10kb) Multiome | 616 | |
| chr6:30,171,597–30,172,574 | 154.9 kb | Distal (>10kb) Multiome | 185 | |
| chr6:30,207,044–30,207,811 | 119.5 kb | Distal (>10kb) Multiome | 514 | |
| chr6:30,212,953–30,213,888 | 113.4 kb | Distal (>10kb) Multiome | 826 | |
| chr6:30,213,977–30,214,728 | 112.3 kb | Distal (>10kb) Multiome | 758 | |
| chr6:30,259,131–30,260,199 | 67.3 kb | Distal (>10kb) Multiome | 475 | |
| chr6:30,325,606–30,327,611 | 106 bp | At TSS Multiome | 1043 | |
| chr6:30,344,843–30,345,715 | 18.4 kb | Distal (>10kb) Multiome | 892 | |
| chr6:30,357,696–30,358,238 | 31.0 kb | Distal (>10kb) Multiome | 207 | |
| chr6:30,466,230–30,466,713 | 139.7 kb | Distal (>10kb) Multiome | 369 | |
| chr6:30,489,117–30,490,512 | 163.4 kb | Distal (>10kb) Multiome | 750 | |
| chr6:30,516,006–30,516,707 | 189.5 kb | Distal (>10kb) Multiome | 739 | |
| chr6:30,555,407–30,557,765 | 229.8 kb | Distal (>10kb) Multiome | 1161 | |
| chr6:30,570,822–30,571,949 | 244.5 kb | Distal (>10kb) Multiome | 1000 | |
| chr6:30,614,393–30,615,939 | 288.3 kb | Distal (>10kb) Multiome | 837 | |
| chr6:30,616,770–30,618,155 | 290.7 kb | Distal (>10kb) Multiome | 1072 | |
| chr6:30,626,560–30,627,206 | 300.0 kb | Distal (>10kb) Multiome | 802 |
Genomic view of the HCG18 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.