Transcription factors with Perturb-seq knockdown data for LINC02084. 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 = LINC02084 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 LINC02084, 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 |
|---|---|---|---|---|
| chr3:27,707,999–27,708,552 | 4.4 kb | Proximal (<10kb) | 24 | |
| chr3:27,709,679–27,710,327 | 2.6 kb | Proximal (<10kb) | 8 | |
| chr3:27,711,660–27,716,254 | at TSS | At TSS | 783 | |
| chr3:27,717,292–27,717,729 | 4.4 kb | Proximal (<10kb) | 17 | |
| chr3:27,719,373–27,720,284 | 6.5 kb | Proximal (<10kb) | 46 | |
| chr3:27,720,744–27,724,896 | 7.8 kb | Proximal (<10kb) | 708 |
Genomic view of the LINC02084 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.