Transcription factors with Perturb-seq knockdown data for LINC02449. 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 = LINC02449 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 LINC02449, 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 |
|---|---|---|---|---|
| chr12:8,227,234–8,228,048 | 7.4 kb | Proximal (<10kb) | 86 | |
| chr12:8,231,568–8,232,189 | 3.2 kb | Proximal (<10kb) | 52 | |
| chr12:8,237,509–8,237,938 | 2.1 kb | Proximal (<10kb) | 125 | |
| chr12:8,242,239–8,244,415 | 6.8 kb | Proximal (<10kb) | 348 |
Genomic view of the LINC02449 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.