Transcription factors with Perturb-seq knockdown data for LNCDAT. 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 = LNCDAT 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 LNCDAT, 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 |
|---|---|---|---|---|
| chr6:166,165,604–166,165,852 | 2.1 kb | Proximal (<10kb) | 22 | |
| chr6:166,166,366–166,169,959 | at TSS | At TSS | 361 | |
| chr6:166,173,190–166,173,899 | 5.3 kb | Proximal (<10kb) | 222 | |
| chr6:166,174,021–166,174,725 | 6.1 kb | Proximal (<10kb) | 62 |
Genomic view of the LNCDAT 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.