
DOI . ORG {
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Title[redir]:
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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Keywords {๐}
stem, cells, cell, histone, google, scholar, article, cas, pubmed, human, pluripotent, protocol, research, genomewide, chromatin, modifications, chapter, privacy, cookies, content, information, publish, epigenetic, chip, rice, biology, proteins, transcription, embryonic, nature, analysis, journal, search, chipseq, dna, download, california, usa, springer, usd, personal, data, including, log, hitchler, judd, book, methods, molecular, genomic,
Topics {โ๏ธ}
genome-wide epigenetic analysis month download article/chapter transcription factor-binding sites embryonic stem cells distinct dna-templated process high-throughput dna sequencing stem cell research genome-wide scale genome-wide mapping genome-wide maps privacy choices/manage cookies integrative genomic analysis lineage-committed cells pluripotent cell lines device instant download unraveling epigenetic regulation humana press human genome stem cell biology stem cells early mouse embryo high-resolution profiling journal finder publish european economic area dissecting direct reprogramming editor information editors applied technology developmen chip-seq protocol conditions privacy policy specific amino acids edythe broad center accepting optional cookies yield important insights author information authors protocol usdย 49 specific histone modifications library construction methods precise genomic location usage analysis online epigenetic regulation protocol cite chip-seq experiments cell science main content log including transcription epigenetic regulators eukaryotic cells million cells protocol hitchler
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- (2003) Phosphorylation of serine 10 in histone H3, what for?
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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 ยญembryonic 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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