Transcription factors with Perturb-seq knockdown data for NFYC-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 = NFYC-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 NFYC-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 |
|---|---|---|---|---|
| chr1:40,394,885–40,396,067 | 296.4 kb | Distal (>10kb) Multiome | 153 | |
| chr1:40,449,758–40,450,645 | 241.9 kb | Distal (>10kb) Multiome | 807 | |
| chr1:40,476,972–40,477,791 | 214.7 kb | Distal (>10kb) Multiome | 683 | |
| chr1:40,508,401–40,509,160 | 183.3 kb | Distal (>10kb) Multiome | 805 | |
| chr1:40,531,425–40,532,089 | 160.5 kb | Distal (>10kb) Multiome | 724 | |
| chr1:40,665,223–40,666,079 | 26.4 kb | Distal (>10kb) Multiome | 465 | |
| chr1:40,691,236–40,692,758 | 170 bp | At TSS Multiome | 1088 | |
| chr1:40,708,827–40,709,450 | 17.1 kb | Distal (>10kb) Multiome | 526 | |
| chr1:40,783,386–40,784,649 | 91.7 kb | Distal (>10kb) Multiome | 448 | |
| chr1:40,802,183–40,803,007 | 110.4 kb | Distal (>10kb) Multiome | 455 | |
| chr1:40,818,171–40,819,026 | 126.7 kb | Distal (>10kb) Multiome | 236 | |
| chr1:40,861,144–40,862,924 | 170.4 kb | Distal (>10kb) Multiome | 724 | |
| chr1:40,863,635–40,864,299 | 172.0 kb | Distal (>10kb) Multiome | 331 | |
| chr1:40,952,369–40,952,943 | 260.6 kb | Distal (>10kb) Multiome | 442 | |
| chr1:40,978,861–40,980,635 | 287.7 kb | Distal (>10kb) Multiome | 809 |
Genomic view of the NFYC-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.