Transcription factors with Perturb-seq knockdown data for LINC02289. 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 = LINC02289 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 LINC02289, 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 |
|---|---|---|---|---|
| chr14:77,068,159–77,068,527 | 7.7 kb | Proximal (<10kb) | 282 | |
| chr14:77,070,747–77,070,944 | 5.2 kb | Proximal (<10kb) | 229 | |
| chr14:77,076,142–77,076,352 | at TSS | At TSS | 90 | |
| chr14:77,085,220–77,085,934 | 9.0 kb | Proximal (<10kb) | 132 |
Genomic view of the LINC02289 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.