Transcription factors with Perturb-seq knockdown data for CNNM3-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 = CNNM3-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 CNNM3-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 |
|---|---|---|---|---|
| chr2:96,815,434–96,817,859 | 1.8 kb | Proximal (<10kb) | 926 | |
| chr2:96,817,953–96,818,186 | 4.3 kb | Proximal (<10kb) | 68 | |
| chr2:96,819,264–96,819,512 | 5.6 kb | Proximal (<10kb) | 581 |
Genomic view of the CNNM3-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.