Transcription factors with Perturb-seq knockdown data for TMC3-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 = TMC3-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 TMC3-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 |
|---|---|---|---|---|
| chr15:79,896,444–79,897,502 | 1427.4 kb | Distal (>10kb) Multiome HiCAR | 983 | |
| chr15:81,133,906–81,134,755 | 190.1 kb | Distal (>10kb) Multiome | 230 | |
| chr15:81,323,755–81,324,850 | 45 bp | At TSS Multiome | 604 | |
| chr15:81,410,364–81,410,658 | at TSS | At TSS | 175 | |
| chr15:81,419,351–81,419,570 | 8.8 kb | Proximal (<10kb) | 156 | |
| chr15:81,433,265–81,433,813 | 109.3 kb | Distal (>10kb) Multiome | 46 | |
| chr15:82,044,186–82,047,995 | 721.8 kb | Distal (>10kb) Multiome HiCAR | 848 |
Genomic view of the TMC3-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.