This gene encodes a member of the forkhead class of DNA-binding proteins. These hepatocyte nuclear factors are transcriptional activators for liver-specific transcripts such as albumin and transthyretin, and they also interact with chromatin. Similar family members in mice have roles in the regulation of metabolism and in the differentiation of the pancreas and liver. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for FOXA1. 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 = FOXA1 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 FOXA1, 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 |
|---|---|---|---|---|
| chr14:37,587,658–37,588,927 | 7.1 kb | Proximal (<10kb) | 732 | |
| chr14:37,591,282–37,593,025 | 3.0 kb | Proximal (<10kb) | 515 | |
| chr14:37,594,092–37,596,733 | at TSS | At TSS | 1108 | |
| chr14:37,596,873–37,597,337 | 814 bp | At TSS | 62 | |
| chr14:37,597,595–37,599,188 | 1.5 kb | Proximal (<10kb) | 235 | |
| chr14:37,599,318–37,600,383 | 3.3 kb | Proximal (<10kb) | 262 |
Genomic view of the FOXA1 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.