Transcription factors with Perturb-seq knockdown data for LINC02875. 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 = LINC02875 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 LINC02875, 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 |
|---|---|---|---|---|
| chr17:61,404,425–61,405,894 | 5.9 kb | Proximal (<10kb) | 178 | |
| chr17:61,409,276–61,409,987 | 1.8 kb | Proximal (<10kb) | 433 | |
| chr17:61,410,664–61,413,462 | at TSS | At TSS | 1016 | |
| chr17:61,416,575–61,417,313 | 4.8 kb | Proximal (<10kb) | 600 |
Genomic view of the LINC02875 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.