Transcription factors with Perturb-seq knockdown data for CCDC90B-AS1. 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 = CCDC90B-AS1 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 CCDC90B-AS1, 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 |
|---|---|---|---|---|
| chr11:83,034,012–83,034,897 | 251.6 kb | Distal (>10kb) Multiome | 343 | |
| chr11:83,071,319–83,072,558 | 214.2 kb | Distal (>10kb) Multiome | 943 | |
| chr11:83,144,373–83,145,287 | 141.3 kb | Distal (>10kb) Multiome | 76 | |
| chr11:83,156,155–83,158,430 | 129.2 kb | Distal (>10kb) Multiome | 1001 | |
| chr11:83,193,357–83,194,770 | 92.4 kb | Distal (>10kb) Multiome | 817 | |
| chr11:83,241,143–83,241,871 | 44.6 kb | Distal (>10kb) Multiome | 285 | |
| chr11:83,285,491–83,286,808 | 67 bp | At TSS Multiome | 1057 | |
| chr11:83,292,426–83,292,762 | 6.3 kb | Proximal (<10kb) | 14 | |
| chr11:83,292,832–83,293,259 | 6.7 kb | Proximal (<10kb) | 140 | |
| chr11:83,318,271–83,319,586 | 32.8 kb | Distal (>10kb) Multiome | 190 | |
| chr11:83,443,851–83,444,454 | 157.9 kb | Distal (>10kb) Multiome HiCAR | 56 | |
| chr11:83,724,266–83,725,551 | 438.9 kb | Distal (>10kb) Multiome HiCAR | 319 |
Genomic view of the CCDC90B-AS1 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.