Tight junctions represent one mode of cell-to-cell adhesion in epithelial or endothelial cell sheets, forming continuous seals around cells and serving as a physical barrier to prevent solutes and water from passing freely through the paracellular space. These junctions are comprised of sets of continuous networking strands in the outwardly facing cytoplasmic leaflet, with complementary grooves in the inwardly facing extracytoplasmic leaflet. The protein encoded by this gene, a member of the claudin family, is an integral membrane protein and a component of tight junction strands. Loss of function mutations result in neonatal ichthyosis-sclerosing cholangitis syndrome. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for CLDN1. 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 = CLDN1 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 CLDN1, 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 |
|---|---|---|---|---|
| chr3:190,120,089–190,121,329 | 201.7 kb | Distal (>10kb) Multiome | 615 | |
| chr3:190,133,779–190,134,630 | 188.4 kb | Distal (>10kb) Multiome | 49 | |
| chr3:190,149,667–190,151,310 | 172.4 kb | Distal (>10kb) Multiome | 236 | |
| chr3:190,167,837–190,168,758 | 154.1 kb | Distal (>10kb) Multiome | 156 | |
| chr3:190,321,681–190,323,496 | 65 bp | At TSS Multiome | 739 | |
| chr3:190,325,594–190,325,819 | 3.1 kb | Proximal (<10kb) | 7 | |
| chr3:190,325,950–190,326,598 | 3.5 kb | Proximal (<10kb) | 76 | |
| chr3:190,513,385–190,515,145 | 191.5 kb | Distal (>10kb) Multiome | 859 |
Genomic view of the CLDN1 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.