Transcription factors with Perturb-seq knockdown data for LINC01341. 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 = LINC01341 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 LINC01341, 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 |
|---|---|---|---|---|
| chr1:246,506,470–246,507,681 | 281.8 kb | Distal (>10kb) Multiome | 631 | |
| chr1:246,565,796–246,567,114 | 222.6 kb | Distal (>10kb) Multiome | 926 | |
| chr1:246,723,808–246,725,073 | 64.8 kb | Distal (>10kb) Multiome | 777 | |
| chr1:246,788,840–246,789,414 | at TSS | At TSS | 150 | |
| chr1:246,789,521–246,789,886 | 418 bp | At TSS | 48 | |
| chr1:246,931,032–246,932,682 | 143.0 kb | Distal (>10kb) Multiome | 1007 | |
| chr1:247,007,420–247,008,623 | 219.0 kb | Distal (>10kb) Multiome | 629 | |
| chr1:247,078,252–247,079,771 | 289.7 kb | Distal (>10kb) Multiome | 817 |
Genomic view of the LINC01341 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.