Transcription factors with Perturb-seq knockdown data for HCG25. 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 = HCG25 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 HCG25, 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 |
|---|---|---|---|---|
| chr6:32,952,883–32,953,496 | 296.3 kb | Distal (>10kb) Multiome | 366 | |
| chr6:32,967,972–32,971,214 | 280.8 kb | Distal (>10kb) Multiome | 1227 | |
| chr6:32,971,467–32,973,408 | 277.5 kb | Distal (>10kb) Multiome | 1115 | |
| chr6:33,009,348–33,009,899 | 239.9 kb | Distal (>10kb) Multiome | 184 | |
| chr6:33,080,635–33,081,087 | 168.9 kb | Distal (>10kb) Multiome | 141 | |
| chr6:33,161,505–33,162,100 | 87.8 kb | Distal (>10kb) Multiome | 589 | |
| chr6:33,199,801–33,201,289 | 48.9 kb | Distal (>10kb) Multiome | 1049 | |
| chr6:33,204,263–33,205,422 | 44.9 kb | Distal (>10kb) Multiome | 762 | |
| chr6:33,208,069–33,208,990 | 40.9 kb | Distal (>10kb) Multiome | 858 | |
| chr6:33,248,132–33,249,983 | 1.3 kb | Proximal (<10kb) Multiome | 961 | |
| chr6:33,271,370–33,272,508 | 22.4 kb | Distal (>10kb) Multiome | 1058 | |
| chr6:33,276,685–33,277,905 | 27.9 kb | Distal (>10kb) Multiome | 807 | |
| chr6:33,288,941–33,289,881 | 39.9 kb | Distal (>10kb) Multiome | 701 | |
| chr6:33,297,445–33,300,232 | 48.3 kb | Distal (>10kb) Multiome | 1095 | |
| chr6:33,312,436–33,314,207 | 63.3 kb | Distal (>10kb) Multiome | 795 | |
| chr6:33,317,189–33,318,504 | 68.4 kb | Distal (>10kb) Multiome | 649 | |
| chr6:33,322,636–33,323,832 | 73.6 kb | Distal (>10kb) Multiome | 941 | |
| chr6:33,346,609–33,347,126 | 97.3 kb | Distal (>10kb) Multiome | 37 | |
| chr6:33,390,888–33,392,247 | 142.1 kb | Distal (>10kb) Multiome | 993 | |
| chr6:33,409,936–33,411,502 | 161.0 kb | Distal (>10kb) Multiome | 977 | |
| chr6:33,417,606–33,419,249 | 168.7 kb | Distal (>10kb) Multiome | 973 | |
| chr6:33,419,793–33,420,532 | 170.7 kb | Distal (>10kb) Multiome | 162 | |
| chr6:33,425,590–33,426,362 | 176.3 kb | Distal (>10kb) Multiome | 665 | |
| chr6:33,431,024–33,432,096 | 181.7 kb | Distal (>10kb) Multiome | 337 | |
| chr6:33,454,074–33,454,852 | 204.9 kb | Distal (>10kb) Multiome | 906 | |
| chr6:33,547,185–33,548,324 | 298.2 kb | Distal (>10kb) Multiome | 155 |
Genomic view of the HCG25 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.