Transcription factors with Perturb-seq knockdown data for PCBP1-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 = PCBP1-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 PCBP1-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 |
|---|---|---|---|---|
| chr2:69,798,793–69,799,774 | 287.8 kb | Distal (>10kb) Multiome | 417 | |
| chr2:69,829,001–69,830,537 | 257.5 kb | Distal (>10kb) Multiome | 1005 | |
| chr2:69,914,102–69,915,874 | 172.2 kb | Distal (>10kb) Multiome HiCAR | 1112 | |
| chr2:70,084,998–70,085,484 | 1.8 kb | Proximal (<10kb) Multiome | 345 | |
| chr2:70,086,194–70,088,572 | 32 bp | At TSS Multiome | 1204 | |
| chr2:70,089,216–70,090,447 | 2.8 kb | Proximal (<10kb) Multiome | 459 | |
| chr2:70,123,128–70,125,445 | 36.5 kb | Distal (>10kb) Multiome | 779 | |
| chr2:70,140,819–70,143,188 | 55.6 kb | Distal (>10kb) Multiome HiCAR | 1260 | |
| chr2:70,190,215–70,191,415 | 103.9 kb | Distal (>10kb) Multiome | 1013 | |
| chr2:70,248,096–70,249,173 | 161.7 kb | Distal (>10kb) Multiome | 999 | |
| chr2:70,257,355–70,258,877 | 171.1 kb | Distal (>10kb) Multiome | 879 | |
| chr2:70,283,629–70,284,233 | 196.9 kb | Distal (>10kb) Multiome | 27 | |
| chr2:70,293,224–70,294,270 | 206.7 kb | Distal (>10kb) Multiome | 956 | |
| chr2:70,301,251–70,302,453 | 214.9 kb | Distal (>10kb) Multiome | 1040 | |
| chr2:70,303,787–70,304,419 | 217.1 kb | Distal (>10kb) Multiome | 306 |
Genomic view of the PCBP1-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.