Transcription factors with Perturb-seq knockdown data for LINC03006. 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 = LINC03006 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 LINC03006, 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 |
|---|---|---|---|---|
| chr7:65,080,759–65,081,624 | 689.6 kb | Distal (>10kb) Multiome HiCAR | 273 | |
| chr7:65,731,509–65,732,049 | 39.0 kb | Distal (>10kb) Multiome | 163 | |
| chr7:65,750,398–65,751,615 | 19.8 kb | Distal (>10kb) Multiome | 754 | |
| chr7:65,751,748–65,751,910 | 810 bp | At TSS | 90 | |
| chr7:65,770,451–65,770,953 | 60 bp | At TSS Multiome | 335 | |
| chr7:65,872,688–65,874,131 | 102.3 kb | Distal (>10kb) Multiome | 352 | |
| chr7:65,981,748–65,982,750 | 211.5 kb | Distal (>10kb) Multiome | 996 | |
| chr7:66,043,712–66,044,711 | 273.5 kb | Distal (>10kb) Multiome | 136 |
Genomic view of the LINC03006 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.