Transcription factors with Perturb-seq knockdown data for LRRC42. 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 = LRRC42 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 LRRC42, 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 |
|---|---|---|---|---|
| chr1:53,737,700–53,739,665 | 206.8 kb | Distal (>10kb) Multiome | 471 | |
| chr1:53,838,019–53,838,779 | 107.7 kb | Distal (>10kb) Multiome | 1058 | |
| chr1:53,889,527–53,890,054 | 56.2 kb | Distal (>10kb) Multiome HiCAR | 654 | |
| chr1:53,944,886–53,946,958 | 87 bp | At TSS Multiome | 806 | |
| chr1:53,949,132–53,949,290 | 3.1 kb | Proximal (<10kb) | 83 | |
| chr1:53,956,851–53,957,534 | 11.2 kb | Distal (>10kb) Multiome | 255 | |
| chr1:54,052,651–54,054,132 | 107.4 kb | Distal (>10kb) Multiome | 833 | |
| chr1:54,121,133–54,122,207 | 175.6 kb | Distal (>10kb) Multiome | 490 | |
| chr1:54,199,512–54,200,664 | 254.0 kb | Distal (>10kb) Multiome | 741 |
Genomic view of the LRRC42 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.