Transcription factors with Perturb-seq knockdown data for LINC00607. 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 = LINC00607 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 LINC00607, 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 |
|---|---|---|---|---|
| chr2:215,435,401–215,436,973 | 395.5 kb | Distal (>10kb) Multiome HiCAR | 942 | |
| chr2:215,828,548–215,828,853 | 2.8 kb | Proximal (<10kb) | 400 | |
| chr2:215,839,787–215,840,136 | 8.2 kb | Proximal (<10kb) | 31 | |
| chr2:216,012,871–216,013,914 | 181.8 kb | Distal (>10kb) Multiome | 664 | |
| chr2:216,081,343–216,082,368 | 250.2 kb | Distal (>10kb) Multiome | 872 | |
| chr2:216,109,035–216,110,011 | 277.7 kb | Distal (>10kb) Multiome | 866 | |
| chr2:216,114,288–216,115,514 | 283.3 kb | Distal (>10kb) Multiome | 671 |
Genomic view of the LINC00607 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.