RFX7 is a member of the regulatory factor X (RFX) family of transcription factors (see RFX1, MIM 600006) (Aftab et al., 2008 [PubMed 18673564]).[supplied by OMIM, Mar 2009]
Modules significantly affected by knockdown. ↑ Up = module upregulated upon KD; ↓ Down = module downregulated upon KD.
| Module | Dir | NES | #gRNA | padj | Bind | OR | padj (bind) |
|---|
| Submodule | Module | Dir | NES | #gRNA | Bind | OR | padj (bind) |
|---|
Genes likely regulated by RFX7 through linked binding evidence in open chromatin. The chart ranks TF-linked genes by their mean Perturb-seq response to RFX7 knockdown, with negative coefficients indicating downregulation and positive coefficients indicating upregulation upon knockdown.
Open chromatin elements (ATAC-seq) where RFX7 has ChIP-seq or motif footprint binding evidence and which are linked to at least one target gene region.
| Element | Size | Linked genes |
|---|
Transcription factors with Perturb-seq knockdown data for RFX7. 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 = RFX7 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 RFX7, 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 |
|---|---|---|---|---|
| chr15:55,992,927–55,994,423 | 250.3 kb | Distal (>10kb) Multiome | 728 | |
| chr15:56,242,930–56,244,999 | 35 bp | At TSS Multiome | 643 | |
| chr15:56,245,857–56,246,386 | 2.3 kb | Proximal (<10kb) Multiome | 738 | |
| chr15:56,248,336–56,248,566 | 4.5 kb | Proximal (<10kb) | 24 | |
| chr15:56,249,186–56,249,369 | 5.3 kb | Proximal (<10kb) | 51 | |
| chr15:56,251,292–56,252,202 | 7.4 kb | Proximal (<10kb) | 187 | |
| chr15:56,364,869–56,365,893 | 121.5 kb | Distal (>10kb) Multiome | 591 | |
| chr15:56,464,770–56,465,573 | 221.3 kb | Distal (>10kb) Multiome | 565 | |
| chr15:56,537,662–56,538,339 | 294.2 kb | Distal (>10kb) Multiome | 170 |
Genomic view of the RFX7 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.