Transcription factors with Perturb-seq knockdown data for TMEM44-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 = TMEM44-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 TMEM44-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 |
|---|---|---|---|---|
| chr3:194,296,491–194,297,721 | 286.8 kb | Distal (>10kb) Multiome | 497 | |
| chr3:194,300,203–194,300,746 | 283.5 kb | Distal (>10kb) Multiome | 313 | |
| chr3:194,315,199–194,316,329 | 268.3 kb | Distal (>10kb) Multiome | 806 | |
| chr3:194,350,134–194,350,796 | 233.6 kb | Distal (>10kb) Multiome HiCAR | 395 | |
| chr3:194,383,090–194,383,793 | 200.6 kb | Distal (>10kb) Multiome | 74 | |
| chr3:194,485,977–194,488,163 | 97.1 kb | Distal (>10kb) Multiome | 767 | |
| chr3:194,573,672–194,574,082 | 9.9 kb | Proximal (<10kb) | 214 | |
| chr3:194,583,635–194,584,305 | 46 bp | At TSS Multiome | 872 | |
| chr3:194,632,897–194,634,022 | 49.5 kb | Distal (>10kb) Multiome | 802 | |
| chr3:194,672,083–194,672,732 | 88.4 kb | Distal (>10kb) Multiome | 910 | |
| chr3:194,682,618–194,683,090 | 98.7 kb | Distal (>10kb) Multiome | 506 | |
| chr3:194,685,606–194,686,409 | 101.9 kb | Distal (>10kb) Multiome | 691 | |
| chr3:194,686,697–194,688,545 | 103.8 kb | Distal (>10kb) Multiome | 426 | |
| chr3:194,768,696–194,769,693 | 185.3 kb | Distal (>10kb) Multiome | 375 |
Genomic view of the TMEM44-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.