Transcription factors with Perturb-seq knockdown data for LINC00958. 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 = LINC00958 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 LINC00958, 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 |
|---|---|---|---|---|
| chr11:12,746,606–12,747,125 | 242.8 kb | Distal (>10kb) Multiome | 393 | |
| chr11:12,794,496–12,795,683 | 194.6 kb | Distal (>10kb) Multiome | 173 | |
| chr11:12,800,108–12,800,919 | 189.0 kb | Distal (>10kb) Multiome | 317 | |
| chr11:12,864,406–12,865,214 | 124.8 kb | Distal (>10kb) Multiome | 304 | |
| chr11:12,914,362–12,914,893 | 74.9 kb | Distal (>10kb) Multiome | 260 | |
| chr11:12,989,483–12,989,770 | at TSS | At TSS | 294 | |
| chr11:13,008,609–13,011,444 | 19.7 kb | Distal (>10kb) Multiome | 460 | |
| chr11:13,012,055–13,012,872 | 23.0 kb | Distal (>10kb) Multiome | 277 | |
| chr11:13,023,116–13,023,827 | 34.0 kb | Distal (>10kb) Multiome | 69 | |
| chr11:13,110,726–13,111,788 | 121.6 kb | Distal (>10kb) Multiome | 264 | |
| chr11:13,114,727–13,115,203 | 125.5 kb | Distal (>10kb) Multiome | 308 | |
| chr11:13,276,893–13,279,144 | 288.0 kb | Distal (>10kb) Multiome | 718 |
Genomic view of the LINC00958 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.