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Title:
Genome-Wide Epigenetic Analysis of Human Pluripotent Stem Cells by ChIP and ChIP-Seq | SpringerLink
Description:
Chromatin immunoprecipitation (ChIP) is used to evaluate the interaction of proteins and genomic DNA. In eukaryotic cells, the DNA is highly compacted with the evolutionarily conserved histone proteins (which together with DNA form the nucleosome) and other...
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(2003) Phosphorylation of serine 10 in histone H3, what for?
(2004) SUMO and ubiquitin in the nucleus: different functions, similar mechanisms?

Schema {🗺️}

ScholarlyArticle:
      headline:Genome-Wide Epigenetic Analysis of Human Pluripotent Stem Cells by ChIP and ChIP-Seq
      pageEnd:267
      pageStart:253
      image:https://media.springernature.com/w153/springer-static/cover/book/978-1-61779-201-4.jpg
      genre:
         Springer Protocols
      isPartOf:
         name:Human Pluripotent Stem Cells
         isbn:
            978-1-61779-201-4
            978-1-61779-200-7
         type:Book
      publisher:
         name:Humana Press
         logo:
            url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
            type:ImageObject
         type:Organization
      author:
            name:Michael J. Hitchler
            affiliation:
                  name:University of Southern California, Keck School of Medicine
                  address:
                     name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
                     type:PostalAddress
                  type:Organization
            type:Person
            name:Judd C. Rice
            affiliation:
                  name:University of Southern California, Keck School of Medicine
                  address:
                     name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
                     type:PostalAddress
                  type:Organization
            email:[email protected]
            type:Person
      keywords:chromatin immunoprecipitation, ChIP, ChIP-Seq, histone methylation, human embryonic stem cells, chromatin, epigenome
      description:Chromatin immunoprecipitation (ChIP) is used to evaluate the interaction of proteins and genomic DNA. In eukaryotic cells, the DNA is highly compacted with the evolutionarily conserved histone proteins (which together with DNA form the nucleosome) and other chromosomal-associated proteins to form the chromatin structure. Chromatin structure is dynamically regulated by several mechanisms including transcription factor binding and various posttranslational modifications of the histone proteins. The chromatin structure can be affected by environmental factors, such as those that induce differentiation or promote self-renewal in stem cells. Using very specific antibodies, one can evaluate the specific amino acids within the histones and each one of these modifications is associated with a distinct DNA-templated process, including transcription. Therefore, determining the location of transcription factors and histone modifications can yield important insights into the DNA-associated activities that are occurring at that particular region of the genome at that time. ChIP followed by high-throughput DNA sequencing (ChIP-Seq) provides a means to rapidly determine the precise genomic location of transcription factor binding sites and histone modifications on a genome-wide scale. Genome-wide mapping of histone modifications and chromatin-associated proteins have already begun to reveal the mechanisms responsible for regulating the pattern of gene expression in mouse embryonic stem cells. However, similar studies in human embryonic stem cells are currently lacking due to the difficulty in obtaining the large number of purified cells typically required for ChIP and ChIP-Seq experiments. Here, we describe a detailed method for determining the locations of specific histone modifications using only one million cells.
      datePublished:2011
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Book:
      name:Human Pluripotent Stem Cells
      isbn:
         978-1-61779-201-4
         978-1-61779-200-7
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      name:Humana Press
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      name:University of Southern California, Keck School of Medicine
      address:
         name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
         type:PostalAddress
      name:University of Southern California, Keck School of Medicine
      address:
         name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
         type:PostalAddress
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      url:https://www.springernature.com/app-sn/public/images/logo-springernature.png
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      name:Michael J. Hitchler
      affiliation:
            name:University of Southern California, Keck School of Medicine
            address:
               name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
               type:PostalAddress
            type:Organization
      name:Judd C. Rice
      affiliation:
            name:University of Southern California, Keck School of Medicine
            address:
               name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
               type:PostalAddress
            type:Organization
      email:[email protected]
PostalAddress:
      name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
      name:Department of Biochemistry and Molecular Biology, University of Southern California, Keck School of Medicine, Los Angeles, USA
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