Transcription factors with Perturb-seq knockdown data for LRP4-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 = LRP4-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 LRP4-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 |
|---|---|---|---|---|
| chr11:46,593,562–46,594,345 | 252.5 kb | Distal (>10kb) Multiome | 845 | |
| chr11:46,616,855–46,618,064 | 229.1 kb | Distal (>10kb) Multiome | 823 | |
| chr11:46,674,791–46,675,556 | 171.4 kb | Distal (>10kb) Multiome | 308 | |
| chr11:46,700,262–46,701,275 | 145.7 kb | Distal (>10kb) Multiome | 997 | |
| chr11:46,826,562–46,827,053 | 19.5 kb | Distal (>10kb) Multiome | 529 | |
| chr11:46,845,538–46,846,680 | 197 bp | At TSS Multiome | 879 | |
| chr11:46,912,540–46,913,271 | 66.4 kb | Distal (>10kb) Multiome | 252 | |
| chr11:46,917,991–46,919,090 | 72.2 kb | Distal (>10kb) Multiome | 405 | |
| chr11:46,936,572–46,937,187 | 90.4 kb | Distal (>10kb) Multiome | 744 |
Genomic view of the LRP4-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.