Transcription factors with Perturb-seq knockdown data for LHX5-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 = LHX5-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 LHX5-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 |
|---|---|---|---|---|
| chr12:113,184,669–113,186,034 | 293.1 kb | Distal (>10kb) Multiome | 1020 | |
| chr12:113,220,621–113,222,139 | 257.3 kb | Distal (>10kb) Multiome | 818 | |
| chr12:113,245,518–113,246,307 | 232.7 kb | Distal (>10kb) Multiome | 649 | |
| chr12:113,334,690–113,335,505 | 143.5 kb | Distal (>10kb) Multiome | 685 | |
| chr12:113,358,144–113,359,258 | 120.1 kb | Distal (>10kb) Multiome | 774 | |
| chr12:113,461,803–113,461,997 | 10.0 kb | Proximal (<10kb) | 78 | |
| chr12:113,462,443–113,462,661 | 9.3 kb | Proximal (<10kb) | 295 | |
| chr12:113,468,422–113,468,712 | 3.3 kb | Proximal (<10kb) | 96 | |
| chr12:113,471,448–113,471,998 | 6.6 kb | Proximal (<10kb) Multiome | 98 | |
| chr12:113,477,415–113,477,998 | 1.0 kb | Proximal (<10kb) Multiome | 71 | |
| chr12:113,478,379–113,478,918 | 6.4 kb | Proximal (<10kb) | 73 | |
| chr12:113,479,942–113,480,362 | 8.0 kb | Proximal (<10kb) | 394 | |
| chr12:113,514,969–113,515,472 | 36.7 kb | Distal (>10kb) Multiome | 83 | |
| chr12:113,587,617–113,588,195 | 109.3 kb | Distal (>10kb) Multiome | 140 | |
| chr12:113,609,843–113,610,459 | 131.6 kb | Distal (>10kb) Multiome | 80 | |
| chr12:114,403,029–114,403,452 | 924.6 kb | Distal (>10kb) Multiome HiCAR | 112 | |
| chr12:114,405,110–114,405,841 | 926.8 kb | Distal (>10kb) Multiome HiCAR | 90 | |
| chr12:114,408,869–114,409,379 | 930.5 kb | Distal (>10kb) Multiome HiCAR | 79 | |
| chr12:114,668,005–114,669,236 | 1189.8 kb | Distal (>10kb) Multiome HiCAR | 557 | |
| chr12:114,683,478–114,686,174 | 1205.8 kb | Distal (>10kb) Multiome HiCAR | 920 |
Genomic view of the LHX5-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.