Transcription factors with Perturb-seq knockdown data for NPIPB3. 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 = NPIPB3 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 NPIPB3, 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 |
|---|---|---|---|---|
| chr16:21,158,270–21,158,975 | 246.7 kb | Distal (>10kb) Multiome | 577 | |
| chr16:21,277,829–21,278,645 | 127.0 kb | Distal (>10kb) Multiome | 636 | |
| chr16:21,283,543–21,284,106 | 121.5 kb | Distal (>10kb) Multiome | 488 | |
| chr16:21,300,604–21,301,993 | 104.6 kb | Distal (>10kb) Multiome | 1062 | |
| chr16:21,501,368–21,502,964 | 97.0 kb | Distal (>10kb) Multiome | 766 | |
| chr16:21,519,749–21,521,002 | 115.2 kb | Distal (>10kb) Multiome | 859 | |
| chr16:21,598,942–21,600,295 | 194.3 kb | Distal (>10kb) Multiome | 1085 |
Genomic view of the NPIPB3 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.