Transcription factors with Perturb-seq knockdown data for LINC02885. 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 = LINC02885 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 LINC02885, 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 |
|---|---|---|---|---|
| chr22:34,834,409–34,834,881 | 168.1 kb | Distal (>10kb) Multiome | 21 | |
| chr22:34,836,688–34,837,824 | 165.5 kb | Distal (>10kb) Multiome | 39 | |
| chr22:35,134,690–35,135,283 | 132.0 kb | Distal (>10kb) Multiome | 87 | |
| chr22:35,257,329–35,258,076 | 254.7 kb | Distal (>10kb) Multiome | 851 | |
| chr22:35,299,271–35,300,787 | 297.1 kb | Distal (>10kb) Multiome | 908 |
Genomic view of the LINC02885 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.