Transcription factors with Perturb-seq knockdown data for LINC03042. 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 = LINC03042 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 LINC03042, 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 |
|---|---|---|---|---|
| chr8:38,521,977–38,522,191 | 6.5 kb | Proximal (<10kb) | 47 | |
| chr8:38,527,810–38,528,211 | 445 bp | At TSS | 430 | |
| chr8:38,530,520–38,531,118 | 1.9 kb | Proximal (<10kb) | 174 | |
| chr8:38,531,267–38,531,524 | 2.6 kb | Proximal (<10kb) | 86 |
Genomic view of the LINC03042 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.