Unknown,Transcriptomics,Genomics,Proteomics

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Chromatin immunoprecipitation of human hepatocytes with H3ac or H4ac antibodies after treatment with sodium butyrate in order to


ABSTRACT: HepG2 cells were treated or untreated with Na-Butyrate and Chromatin immunoprecipitations were performed in order to investigate the genomic regions displaying changes in histone acetylation pattern (H3ac and H4ac) after treatment. Such ChIPs material were analyzed by ChIP-Chip, hybridizing ChIP DNA and reference DNA into arrays covering 1% of the human genomes as defined by the ENCODE consortium. By comparing arrays hybridized with ChIPs obtained using antibodies against acetylated histones before and after butyrate treatment, we deteceted those genomic regions that significantly changed in their histone acetylation patterns. Furthermore, as a control in order to determine specific enrichemnts we performed ChIPs where no antibody was used and hybridized the resultsing DNA against reference DNA. In this last case, experiments were performed only with untreated cells.

INSTRUMENT(S): Axon GenePix4000B

ORGANISM(S): Homo sapiens

SUBMITTER: Claes Wadelius 

PROVIDER: E-MEXP-693 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications


We present a detailed in vivo characterization of hepatocyte transcriptional regulation in HepG2 cells, using chromatin immunoprecipitation and detection on PCR fragment-based genomic tiling path arrays covering the encyclopedia of DNA element (ENCODE) regions. Our data suggest that HNF-4alpha and HNF-3beta, which were commonly bound to distal regulatory elements, may cooperate in the regulation of a large fraction of the liver transcriptome and that both HNF-4alpha and USF1 may promote H3 acety  ...[more]

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