Transcription factors with Perturb-seq knockdown data for LNC-LBCS. 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 = LNC-LBCS 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 LNC-LBCS, 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 |
|---|---|---|---|---|
| chr6:19,691,450–19,692,400 | 113.0 kb | Distal (>10kb) Multiome | 214 | |
| chr6:19,804,028–19,805,611 | 19 bp | At TSS Multiome | 949 | |
| chr6:19,812,612–19,812,984 | 7.9 kb | Proximal (<10kb) | 72 | |
| chr6:19,836,718–19,839,366 | 32.5 kb | Distal (>10kb) Multiome | 733 |
Genomic view of the LNC-LBCS 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.