Transcription factors with Perturb-seq knockdown data for LINC01122. 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 = LINC01122 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 LINC01122, 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 |
|---|---|---|---|---|
| chr2:58,240,694–58,241,751 | 187.1 kb | Distal (>10kb) Multiome | 963 | |
| chr2:58,312,368–58,313,254 | 115.6 kb | Distal (>10kb) Multiome | 66 | |
| chr2:58,427,459–58,429,418 | 369 bp | At TSS Multiome | 520 | |
| chr2:58,434,509–58,435,726 | 7.0 kb | Proximal (<10kb) Multiome | 131 | |
| chr2:58,447,649–58,448,569 | 19.8 kb | Distal (>10kb) Multiome | 351 | |
| chr2:58,535,035–58,535,588 | 107.1 kb | Distal (>10kb) Multiome | 228 |
Genomic view of the LINC01122 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.