Transcription factors with Perturb-seq knockdown data for TTC28-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 = TTC28-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 TTC28-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 |
|---|---|---|---|---|
| chr22:27,670,625–27,671,125 | 248.6 kb | Distal (>10kb) Multiome | 433 | |
| chr22:27,800,250–27,802,619 | 117.6 kb | Distal (>10kb) Multiome | 403 | |
| chr22:27,918,553–27,920,341 | 168 bp | At TSS Multiome | 804 | |
| chr22:28,112,540–28,113,010 | 193.2 kb | Distal (>10kb) Multiome | 163 |
Genomic view of the TTC28-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.