This gene is located within a chromosomal region that shows loss of heterozygosity in some bladder cancers. It contains a 5' CpG island that may be a frequent target of hypermethylation, and it may undergo hypermethylation-based silencing in some bladder cancers. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for BRINP1. 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 = BRINP1 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 BRINP1, 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 |
|---|---|---|---|---|
| chr9:117,487,317–117,488,269 | 1881.7 kb | Distal (>10kb) Multiome HiCAR | 611 | |
| chr9:117,750,182–117,751,027 | 1618.8 kb | Distal (>10kb) Multiome HiCAR | 95 | |
| chr9:118,808,880–118,809,817 | 560.1 kb | Distal (>10kb) Multiome HiCAR | 141 | |
| chr9:119,360,191–119,361,016 | 8.4 kb | Proximal (<10kb) | 31 | |
| chr9:119,365,392–119,366,123 | 3.3 kb | Proximal (<10kb) | 123 | |
| chr9:119,367,536–119,368,103 | 1.3 kb | Proximal (<10kb) | 23 | |
| chr9:119,368,653–119,370,458 | 27 bp | At TSS Multiome | 227 | |
| chr9:119,370,684–119,371,091 | 1.2 kb | Proximal (<10kb) | 187 | |
| chr9:119,375,973–119,376,290 | 6.5 kb | Proximal (<10kb) | 82 | |
| chr9:119,555,921–119,556,930 | 186.9 kb | Distal (>10kb) Multiome | 491 | |
| chr9:120,348,743–120,349,526 | 979.7 kb | Distal (>10kb) Multiome HiCAR | 233 |
Genomic view of the BRINP1 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.