Transcription factors with Perturb-seq knockdown data for EGFLAM-AS4. 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 = EGFLAM-AS4 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 EGFLAM-AS4, 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 |
|---|---|---|---|---|
| chr5:38,257,138–38,259,418 | 33.0 kb | Distal (>10kb) Multiome | 516 | |
| chr5:38,282,287–38,282,602 | 8.4 kb | Proximal (<10kb) | 10 | |
| chr5:38,297,600–38,298,218 | 6.6 kb | Proximal (<10kb) | 73 | |
| chr5:38,339,209–38,340,222 | 48.6 kb | Distal (>10kb) Multiome | 116 | |
| chr5:38,340,677–38,342,767 | 51.5 kb | Distal (>10kb) Multiome | 137 | |
| chr5:38,367,348–38,368,809 | 76.6 kb | Distal (>10kb) Multiome | 123 | |
| chr5:38,378,926–38,379,942 | 88.5 kb | Distal (>10kb) Multiome | 246 | |
| chr5:38,431,142–38,431,961 | 140.6 kb | Distal (>10kb) Multiome | 118 | |
| chr5:38,472,623–38,473,502 | 182.2 kb | Distal (>10kb) Multiome | 153 | |
| chr5:38,555,925–38,557,581 | 265.7 kb | Distal (>10kb) Multiome | 755 |
Genomic view of the EGFLAM-AS4 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.