ArticlePloS one2010
Tiling histone H3 lysine 4 and 27 methylation in zebrafish using high-density microarrays.
Article in PloS one, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Heterochronic development of pelvic fins in zebrafish: possible involvement of temporal regulation ofFrontiers in cell and developmental biology · 2023Article
- Zebrafish as an In Vivo Model to Assess Epigenetic Effects of Ionizing Radiation.International journal of molecular sciences · 2016Review
- BPA-Induced Deregulation Of Epigenetic Patterns: Effects On Female Zebrafish Reproduction.Scientific reports · 2016Article
- Zebrafish as a model to study the role of DNA methylation in environmental toxicology.Environmental science and pollution research international · 2015Review
- In utero exposure to a maternal high-fat diet alters the epigenetic histone code in a murine model.American journal of obstetrics and gynecology · 2014Article
- Time for the zebrafish ENCODE.Journal of genetics · 2013Article
- Chromatin-linked determinants of zygotic genome activation.Cellular and molecular life sciences : CMLS · 2013Review
- Developmental features of DNA methylation during activation of the embryonic zebrafish genome.Genome biology · 2012Article
- UHRF1 phosphorylation by cyclin A2/cyclin-dependent kinase 2 is required for zebrafish embryogenesis.Molecular biology of the cell · 2012Article
- Identification of cis regulatory features in the embryonic zebrafish genome through large-scale profiling of H3K4me1 and H3K4me3 binding sites.Developmental biology · 2011Article
- Epigenetics, development, and cancer: zebrafish make their mark..Birth defects research. Part C, Embryo today : reviews · 2011Review
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundUncovering epigenetic states by chromatin immunoprecipitation and microarray hybridization (ChIP-chip) has significantly contributed to the understanding of gene regulation at the genome-scale level. Many studies have been carried out in mice and humans; however limited high-resolution information exists to date for non-mammalian vertebrate species. PRINCIPAL
findingsWe report a 2.1-million feature high-resolution Nimblegen tiling microarray for ChIP-chip interrogations of epigenetic states in zebrafish (Danio rerio). The array covers 251 megabases of the genome at 92 base-pair resolution. It includes ∼15 kb of upstream regulatory sequences encompassing all RefSeq promoters, and over 5 kb in the 5' end of coding regions. We identify with high reproducibility, in a fibroblast cell line, promoters enriched in H3K4me3, H3K27me3 or co-enriched in both modifications. ChIP-qPCR and sequential ChIP experiments validate the ChIP-chip data and support the co-enrichment of trimethylated H3K4 and H3K27 on a subset of genes. H3K4me3- and/or H3K27me3-enriched genes are associated with distinct transcriptional status and are linked to distinct functional categories.
conclusionsWe have designed and validated for the scientific community a comprehensive high-resolution tiling microarray for investigations of epigenetic states in zebrafish, a widely used developmental and disease model organism.
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