Transcription factors with Perturb-seq knockdown data for LIN28B-AS1. 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 = LIN28B-AS1 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 LIN28B-AS1, 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 |
|---|---|---|---|---|
| chr6:104,859,146–104,860,267 | 80.7 kb | Distal (>10kb) Multiome | 883 | |
| chr6:104,933,625–104,933,758 | 6.8 kb | Proximal (<10kb) | 6 | |
| chr6:104,933,984–104,934,149 | 6.4 kb | Proximal (<10kb) | 7 | |
| chr6:104,934,253–104,934,406 | 6.1 kb | Proximal (<10kb) | 4 | |
| chr6:104,940,109–104,942,073 | 972 bp | At TSS Multiome | 831 | |
| chr6:104,952,936–104,954,114 | 13.2 kb | Distal (>10kb) Multiome | 355 | |
| chr6:104,955,587–104,956,441 | 15.5 kb | Distal (>10kb) Multiome | 520 | |
| chr6:104,956,943–104,957,947 | 16.9 kb | Distal (>10kb) Multiome | 491 | |
| chr6:105,136,176–105,137,720 | 196.5 kb | Distal (>10kb) Multiome | 532 | |
| chr6:105,179,230–105,180,501 | 239.3 kb | Distal (>10kb) Multiome | 477 |
Genomic view of the LIN28B-AS1 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.