Transcription factors with Perturb-seq knockdown data for TRAF3IP2-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 = TRAF3IP2-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 TRAF3IP2-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 |
|---|---|---|---|---|
| chr6:111,251,962–111,252,726 | 231.3 kb | Distal (>10kb) Multiome | 110 | |
| chr6:111,258,884–111,259,808 | 224.3 kb | Distal (>10kb) Multiome | 945 | |
| chr6:111,477,255–111,477,926 | 6.0 kb | Proximal (<10kb) Multiome | 224 | |
| chr6:111,478,778–111,479,202 | 4.3 kb | Proximal (<10kb) | 295 | |
| chr6:111,482,095–111,484,488 | 103 bp | At TSS Multiome | 1155 | |
| chr6:111,551,467–111,552,823 | 68.4 kb | Distal (>10kb) Multiome HiCAR | 624 | |
| chr6:111,605,423–111,606,562 | 122.3 kb | Distal (>10kb) Multiome | 672 | |
| chr6:111,661,571–111,662,099 | 178.3 kb | Distal (>10kb) Multiome | 114 | |
| chr6:111,663,255–111,663,981 | 180.2 kb | Distal (>10kb) Multiome | 220 | |
| chr6:112,043,090–112,044,140 | 560.2 kb | Distal (>10kb) Multiome HiCAR | 680 |
Genomic view of the TRAF3IP2-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.