Transcription factors with Perturb-seq knockdown data for IADEN. 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 = IADEN 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 IADEN, 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 |
|---|---|---|---|---|
| chr8:131,307,815–131,308,810 | at TSS | At TSS | 196 | |
| chr8:131,309,248–131,310,724 | 704 bp | At TSS | 175 | |
| chr8:131,311,680–131,312,213 | 3.1 kb | Proximal (<10kb) | 47 | |
| chr8:131,312,327–131,313,567 | 3.8 kb | Proximal (<10kb) | 145 | |
| chr8:131,314,936–131,315,594 | 6.4 kb | Proximal (<10kb) | 4 | |
| chr8:131,317,369–131,318,121 | 8.8 kb | Proximal (<10kb) | 85 | |
| chr8:131,318,226–131,319,981 | 9.7 kb | Proximal (<10kb) | 117 |
Genomic view of the IADEN 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.