Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Mapping of H3K4 and H3K27 trimethylation in zebrafish cells (Gene expression)

ABSTRACT: The genomic distribution of post-translationally modified histones in the zebrafish (Danio rerio) genome remain largely unraveled. The objective of this study was to (1) design a microarray covering all zebrafish gene promoters and 5' end of coding regions, and (ii) using these arrrays, map the genome-wide distribution of trimethylated H3K4 and H3K27 in the embryo derived ZF4 cell line. Specifically, we determined the enrichment profile of H3K4me3, H3K27me3 and of both (co-enriched) modifications in ZF4 cells. We determined average enrichment profiles through metagene analysis, functional terms enriched among genes marked by either modification, pathway analysis, and in relation to gene expression. Gene expression experiments were performed on three biological replicates.

ORGANISM(S): Danio rerio

SUBMITTER: Philippe Collas

PROVIDER: E-GEOD-23679 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Tiling histone H3 lysine 4 and 27 methylation in zebrafish using high-density microarrays.

Lindeman Leif C LC Reiner Andrew H AH Mathavan Sinnakaruppan S Aleström Peter P Collas Philippe P

PloS one 20101220 12

<h4>Background</h4>Uncovering 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.<h4>Principal findings</h4>We report a 2.1-million feature high-resolution Nimblegen tiling microarray for ChIP-chip interrogation ...[more]

PMID: 21187971

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Dataset Information

Mapping of H3K4 and H3K27 trimethylation in zebrafish cells (Gene expression)

Publications

Tiling histone H3 lysine 4 and 27 methylation in zebrafish using high-density microarrays.

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