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Methylation analysis by DNA immunoprecipitation
Author(s) -
Thu Kelsie L.,
Pikor Larissa A.,
Kennett Jennifer Y.,
Alvarez Carlos E.,
Lam Wan L.
Publication year - 2010
Publication title -
journal of cellular physiology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.529
H-Index - 174
eISSN - 1097-4652
pISSN - 0021-9541
DOI - 10.1002/jcp.22009
Subject(s) - dna methylation , chromatin immunoprecipitation , methylated dna immunoprecipitation , methylation , biology , human genome , rna directed dna methylation , epigenomics , promoter , illumina methylation assay , computational biology , dna , epigenetics of physical exercise , gene , chromatin , genetics , genome , gene expression
DNA methylation regulates gene expression primarily through modification of chromatin structure. Global methylation studies have revealed biologically relevant patterns of DNA methylation in the human genome affecting sequences such as gene promoters, gene bodies, and repetitive elements. Disruption of normal methylation patterns and subsequent gene expression changes have been observed in several diseases especially in human cancers. Immunoprecipitation (IP)‐based methods to evaluate methylation status of DNA have been instrumental in such genome‐wide methylation studies. This review describes techniques commonly used to identify and quantify methylated DNA with emphasis on IP based platforms. In an effort to consolidate the wealth of information and highlight critical aspects of methylated DNA analysis, sample considerations, experimental and bioinformatic approaches for analyzing genome‐wide methylation profiles, and the benefit of integrating DNA methylation data with complementary dimensions of genomic data are discussed. J. Cell. Physiol. 222: 522–531, 2010. © 2009 Wiley‐Liss, Inc.