Transcription factors with Perturb-seq knockdown data for GRM3-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 = GRM3-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 GRM3-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 |
|---|---|---|---|---|
| chr7:86,643,462–86,645,461 | 159.5 kb | Distal (>10kb) Multiome | 398 | |
| chr7:86,685,174–86,685,929 | 117.8 kb | Distal (>10kb) Multiome | 121 | |
| chr7:86,964,698–86,966,215 | 161.7 kb | Distal (>10kb) Multiome | 164 | |
| chr7:87,058,811–87,060,346 | 256.3 kb | Distal (>10kb) Multiome | 675 |
Genomic view of the GRM3-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.