Transcription factors with Perturb-seq knockdown data for PPM1J-DT. 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 = PPM1J-DT 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 PPM1J-DT, 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 |
|---|---|---|---|---|
| chr1:112,706,536–112,707,966 | 7.7 kb | Proximal (<10kb) | 784 | |
| chr1:112,714,149–112,716,774 | at TSS | At TSS | 765 | |
| chr1:112,718,742–112,719,144 | 3.1 kb | Proximal (<10kb) | 343 | |
| chr1:112,722,394–112,723,272 | 6.7 kb | Proximal (<10kb) | 178 |
Genomic view of the PPM1J-DT 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.