Transcription factors with Perturb-seq knockdown data for UGDH-AS1. 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 = UGDH-AS1 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 UGDH-AS1, 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 |
|---|---|---|---|---|
| chr4:39,365,894–39,366,933 | 161.4 kb | Distal (>10kb) Multiome | 1045 | |
| chr4:39,446,525–39,447,613 | 80.6 kb | Distal (>10kb) Multiome | 443 | |
| chr4:39,458,264–39,459,604 | 68.8 kb | Distal (>10kb) Multiome | 1000 | |
| chr4:39,526,691–39,528,369 | 88 bp | At TSS Multiome | 1061 | |
| chr4:39,558,019–39,558,995 | 30.7 kb | Distal (>10kb) Multiome | 500 | |
| chr4:39,635,065–39,635,553 | 107.6 kb | Distal (>10kb) Multiome | 157 | |
| chr4:39,637,938–39,639,954 | 111.3 kb | Distal (>10kb) Multiome HiCAR | 976 | |
| chr4:39,697,357–39,698,855 | 170.3 kb | Distal (>10kb) Multiome | 866 |
Genomic view of the UGDH-AS1 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.