Transcription factors with Perturb-seq knockdown data for MIR9-3HG. 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 = MIR9-3HG 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 MIR9-3HG, 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 |
|---|---|---|---|---|
| chr15:89,361,760–89,362,002 | 9.6 kb | Proximal (<10kb) | 558 | |
| chr15:89,367,305–89,368,054 | 3.5 kb | Proximal (<10kb) | 267 | |
| chr15:89,368,389–89,368,975 | 2.6 kb | Proximal (<10kb) | 81 | |
| chr15:89,371,087–89,371,852 | at TSS | At TSS | 122 | |
| chr15:89,378,526–89,378,897 | 6.9 kb | Proximal (<10kb) | 218 |
Genomic view of the MIR9-3HG 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.