ArticleNucleic acids research2008
Global analysis of in vivo Foxa2-binding sites in mouse adult liver using massively parallel sequencing.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 97 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
97 citing papers in PubMed, 155 citations in OpenAlex.
- FOXA2 in islet biology: Orchestrating pancreatic development and glucose homeostasis.Genes & diseases · 2026Review
- HNF4A guides the MLL4 complex to establish and maintain H3K4me1 at gene regulatory elements.Communications biology · 2024Article
- Peak Scores Significantly Depend on the Relationships between Contextual Signals in ChIP-Seq Peaks.International journal of molecular sciences · 2024Article
- Summary of ChIP-Seq Methods and Description of an Optimized ChIP-Seq Protocol.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Charting the Path: Navigating Embryonic Development to Potentially Safeguard against Congenital Heart Defects.Journal of personalized medicine · 2023Review
- Web-MCOT Server for Motif Co-Occurrence Search in ChIP-Seq Data.International journal of molecular sciences · 2022Article
- An Optimized ChIP-Seq Protocol to Determine Chromatin Binding of Estrogen Receptor Beta.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Bedshift: perturbation of genomic interval sets.Genome biology · 2021Article
- Nanog maintains stemness of Lkb1-deficient lung adenocarcinoma and prevents gastric differentiation.EMBO molecular medicine · 2021Article
- Asymmetric Conservation within Pairs of Co-Occurred Motifs Mediates Weak Direct Binding of Transcription Factors in ChIP-Seq Data.International journal of molecular sciences · 2020Article
- Deep Transcriptomic Analysis Reveals the Dynamic Developmental Progression during Early Development of Channel Catfish (International journal of molecular sciences · 2020Article
- Hepatic TET3 contributes to type-2 diabetes by inducing the HNF4α fetal isoform.Nature communications · 2020Article
- Article
- FOXA2 controls the cis-regulatory networks of pancreatic cancer cells in a differentiation grade-specific manner.The EMBO journal · 2019Article
- Hepatocyte Nuclear Factor 4-Alpha Is Essential for the Active Epigenetic State at Enhancers in Mouse Liver.Hepatology (Baltimore, Md.) · 2019Article
- Pre-marked chromatin and transcription factor co-binding shape the pioneering activity of Foxa2.Nucleic acids research · 2019Article
- SRAssembler: Selective Recursive local Assembly of homologous genomic regions.BMC bioinformatics · 2019Article
- Remodeling of Glycosaminoglycans During Differentiation of Adult Human Bone Mesenchymal Stromal Cells Toward Hepatocytes.Stem cells and development · 2019Article
- Increase in secreted airway mucins and partial Muc5b STAT6/FoxA2 regulation during Pneumocystis primary infection.Scientific reports · 2019Article
- Conserved Upstream Regulatory Regions in Mammalian Tyrosine Hydroxylase.Molecular neurobiology · 2018Article
37 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
16 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Foxa2 (HNF3 beta) is a one of three, closely related transcription factors that are critical to the development and function of the mouse liver. We have used chromatin immunoprecipitation and massively parallel Illumina 1G sequencing (ChIP-Seq) to create a genome-wide profile of in vivo Foxa2-binding sites in the adult liver. More than 65% of the approximately 11.5 k genomic sites associated with Foxa2 binding, mapped to extended gene regions of annotated genes, while more than 30% of intragenic sites were located within first introns. 20.5% of all sites were further than 50 kb from any annotated gene, suggesting an association with novel gene regions. QPCR analysis demonstrated a strong positive correlation between peak height and fold enrichment for Foxa2-binding sites. We measured the relationship between Foxa2 and liver gene expression by overlapping Foxa2-binding sites with a SAGE transcriptome profile, and found that 43.5% of genes expressed in the liver were also associated with Foxa2 binding. We also identified potential Foxa2-interacting transcription factors whose motifs were enriched near Foxa2-binding sites. Our comprehensive results for in vivo Foxa2-binding sites in the mouse liver will contribute to resolving transcriptional regulatory networks that are important for adult liver function.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.