Transcription factors with Perturb-seq knockdown data for LAPTM4A-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 = LAPTM4A-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 LAPTM4A-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 |
|---|---|---|---|---|
| chr2:20,042,508–20,043,544 | 8.6 kb | Proximal (<10kb) | 34 | |
| chr2:20,045,819–20,046,308 | 5.8 kb | Proximal (<10kb) | 74 | |
| chr2:20,049,101–20,049,530 | 2.6 kb | Proximal (<10kb) | 46 | |
| chr2:20,050,661–20,052,578 | at TSS | At TSS | 1029 |
Genomic view of the LAPTM4A-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.