Transcription factors with Perturb-seq knockdown data for LINC01128. 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 = LINC01128 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 LINC01128, 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 |
|---|---|---|---|---|
| chr1:827,257–827,657 | at TSS | At TSS | 260 | |
| chr1:904,256–904,920 | 77.1 kb | Distal (>10kb) Multiome | 590 | |
| chr1:923,612–925,339 | 96.3 kb | Distal (>10kb) Multiome | 500 | |
| chr1:939,835–943,080 | 114.3 kb | Distal (>10kb) Multiome | 864 | |
| chr1:959,035–960,017 | 131.7 kb | Distal (>10kb) Multiome | 622 | |
| chr1:960,291–961,429 | 133.2 kb | Distal (>10kb) Multiome | 552 | |
| chr1:975,960–976,521 | 148.6 kb | Distal (>10kb) Multiome | 476 | |
| chr1:998,350–1,000,999 | 172.7 kb | Distal (>10kb) Multiome | 1047 | |
| chr1:1,001,349–1,002,099 | 174.4 kb | Distal (>10kb) Multiome | 646 | |
| chr1:1,005,015–1,005,702 | 177.7 kb | Distal (>10kb) Multiome | 532 | |
| chr1:1,019,142–1,021,414 | 192.0 kb | Distal (>10kb) Multiome | 707 | |
| chr1:1,032,438–1,034,753 | 205.6 kb | Distal (>10kb) Multiome | 475 | |
| chr1:1,040,071–1,041,597 | 213.4 kb | Distal (>10kb) Multiome | 410 | |
| chr1:1,058,856–1,060,114 | 231.9 kb | Distal (>10kb) Multiome | 609 | |
| chr1:1,068,556–1,069,991 | 241.6 kb | Distal (>10kb) Multiome | 577 | |
| chr1:1,079,478–1,080,558 | 252.5 kb | Distal (>10kb) Multiome | 746 | |
| chr1:1,115,769–1,117,022 | 288.7 kb | Distal (>10kb) Multiome | 743 |
Genomic view of the LINC01128 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.