Transcription factors with Perturb-seq knockdown data for TMPO-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 = TMPO-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 TMPO-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 |
|---|---|---|---|---|
| chr12:98,397,273–98,398,042 | 118.6 kb | Distal (>10kb) Multiome | 455 | |
| chr12:98,456,620–98,457,422 | 59.2 kb | Distal (>10kb) Multiome | 319 | |
| chr12:98,490,969–98,491,482 | 25.0 kb | Distal (>10kb) Multiome | 594 | |
| chr12:98,502,866–98,504,417 | 12.4 kb | Distal (>10kb) Multiome | 1073 | |
| chr12:98,508,872–98,509,583 | 6.6 kb | Proximal (<10kb) | 183 | |
| chr12:98,515,010–98,516,657 | 662 bp | At TSS Multiome | 999 | |
| chr12:98,520,559–98,520,845 | 4.3 kb | Proximal (<10kb) | 80 | |
| chr12:98,593,166–98,594,492 | 77.4 kb | Distal (>10kb) Multiome | 874 | |
| chr12:98,644,115–98,645,908 | 128.8 kb | Distal (>10kb) Multiome | 906 | |
| chr12:98,696,171–98,696,840 | 180.3 kb | Distal (>10kb) Multiome | 204 |
Genomic view of the TMPO-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.