Transcription factors with Perturb-seq knockdown data for LINC00471. 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 = LINC00471 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 LINC00471, 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 |
|---|---|---|---|---|
| chr2:231,370,064–231,371,397 | 143.6 kb | Distal (>10kb) Multiome | 214 | |
| chr2:231,375,406–231,377,370 | 137.9 kb | Distal (>10kb) Multiome | 232 | |
| chr2:231,394,766–231,396,655 | 118.8 kb | Distal (>10kb) Multiome | 339 | |
| chr2:231,410,617–231,411,062 | 103.7 kb | Distal (>10kb) Multiome | 150 | |
| chr2:231,411,845–231,413,014 | 102.0 kb | Distal (>10kb) Multiome | 691 | |
| chr2:231,463,695–231,465,687 | 49.8 kb | Distal (>10kb) Multiome | 1126 | |
| chr2:231,482,645–231,483,215 | 31.4 kb | Distal (>10kb) Multiome | 450 | |
| chr2:231,483,468–231,484,163 | 30.5 kb | Distal (>10kb) Multiome | 197 | |
| chr2:231,514,074–231,514,984 | 117 bp | At TSS Multiome | 731 | |
| chr2:231,530,197–231,530,963 | 16.1 kb | Distal (>10kb) Multiome | 395 | |
| chr2:231,601,487–231,602,111 | 87.4 kb | Distal (>10kb) Multiome | 239 | |
| chr2:231,604,056–231,605,408 | 90.4 kb | Distal (>10kb) Multiome | 677 | |
| chr2:231,611,822–231,613,019 | 98.2 kb | Distal (>10kb) Multiome | 673 | |
| chr2:231,613,128–231,615,041 | 99.9 kb | Distal (>10kb) Multiome | 956 | |
| chr2:231,621,037–231,621,485 | 107.1 kb | Distal (>10kb) Multiome | 189 | |
| chr2:231,661,829–231,663,079 | 148.0 kb | Distal (>10kb) Multiome | 645 | |
| chr2:231,666,093–231,667,175 | 152.2 kb | Distal (>10kb) Multiome | 778 | |
| chr2:231,672,732–231,673,910 | 159.0 kb | Distal (>10kb) Multiome | 570 | |
| chr2:231,674,697–231,675,325 | 160.7 kb | Distal (>10kb) Multiome | 455 | |
| chr2:231,679,801–231,681,869 | 166.0 kb | Distal (>10kb) Multiome | 959 | |
| chr2:231,687,250–231,687,863 | 173.1 kb | Distal (>10kb) Multiome | 640 | |
| chr2:231,706,062–231,711,186 | 194.0 kb | Distal (>10kb) Multiome | 1322 | |
| chr2:231,713,567–231,715,698 | 200.8 kb | Distal (>10kb) Multiome | 974 | |
| chr2:231,780,605–231,781,892 | 267.0 kb | Distal (>10kb) Multiome | 832 | |
| chr2:231,786,115–231,787,127 | 272.1 kb | Distal (>10kb) Multiome | 1074 |
Genomic view of the LINC00471 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.