Assessment of changes in global DNA methylation levels by Pyrosequencing® of repetitive elements

Methods in Molecular Biology

Volumn 1315, Issue , 2015, Pages 201-207

  Tabish, Ali M ^a   Baccarelli, Andrea A ^a   Godderis, Lode ^a   Barrow, Timothy M ^a   Hoet, Peter ^a   Byun, Hyang Min ^a  

^a NONE

Author keywords

Alu; Bisulphite pyrosequencing; CpG dinucleotides; Epigenetics; Global DNA methylation; LINE 1; Repetitive elements

Indexed keywords

BISULFITE; HYDROGEN SULFITE; PRIMER DNA; SULFITE; TRANSPOSON;

ALU SEQUENCE; AMPLICON; ARTICLE; DNA METHYLATION; GENOMIC INSTABILITY; GOLD STANDARD; HUMAN; HUMAN GENOME; PRIORITY JOURNAL; PYROSEQUENCING; QUALITY CONTROL; TRANSPOSON; ANALYSIS; DNA SEQUENCE; DRUG EFFECTS; GENETICS; GENOMICS; PROCEDURES;

ANALYTIC SAMPLE PREPARATION METHODS; DNA METHYLATION; DNA PRIMERS; DNA TRANSPOSABLE ELEMENTS; GENOME, HUMAN; GENOMICS; HUMANS; SEQUENCE ANALYSIS, DNA; SULFITES;

EID: 84933059529     PISSN: 10643745     EISSN: None     Source Type: Book Series    
DOI: 10.1007/978-1-4939-2715-9_15     Document Type: Article

References (14)

1. Lander ES, Linton LM, Birren B, International Human Genome Sequencing C et al (2001) Initial sequencing and analysis of the human genome. Nature 409:860-921
2. Byun HM, Motta V, Panni T et al (2013) Evolutionary age of repetitive element subfamilies and sensitivity of DNA methylation to airborne pollutants. Parti Fibre Toxicol 10:28
3. Su J, Shao X, Liu H et al (2012) Genome-wide dynamic changes of DNA methylation of repetitive elements in human embryonic stem cells and fetal fibroblasts. Genomics 99:10-17
4. Choi SH, Worswick S, Byun HM et al (2009) Changes in DNA methylation of tandem DNA repeats are different from interspersed repeats in cancer. Int J Cancer 125:723-729
5. Guo L, Byun HM, Zhong J et al (2014) Effects of short-term exposure to inhalable particulate matter on DNA methylation of tandem repeats. Environ Mol Mutagen 55:322-335
6. Florea A-M (2013) DNA methylation pyrosequencing assay is applicable for the assessment of epigenetic active environmental or clinical relevant chemicals. Biomed Res Int 2013: 486072
7. Lai RK, Chen Y, Guan X et al (2014) Genomewide methylation analyses in glioblastoma multiforme. PloS One 9:e89376
8. Yang AS, Estecio MR, Doshi K et al (2004) A simple method for estimating global DNA methylation using bisulfite PCR of repetitive DNA elements. Nucleic Acids Res 32:e38
9. Baccarelli A, Wright R, Bollati V et al (2010) Ischemic heart disease and stroke in relation to blood DNA methylation. Epidemiol 21: 819-828
10. Zhu ZZ, Hou L, Bollati V et al (2012) Predictors of global methylation levels in blood DNA of healthy subjects: a combined analysis. Int J Epidemiol 41:126-139
11. Wagner I, Capesius I (1981) Determination of 5-methylcytosine from plant DNA by highperformance liquid chromatography. Biochim Biophys Acta 654:52-56
12. Feinberg AP, Vogelstein B (1983) Hypomethylation distinguishes genes of some human cancers from their normal counterparts. Nature 301:89-92
13. Baba Y, Huttenhower C, Nosho K et al (2010) Epigenomic diversity of colorectal cancer indicated by LINE-1 methylation in a database of 869 tumors. Mol Cancer 9:125
14. Lisanti S, Omar WA, Tomaszewski B et al (2013) Comparison of methods for quantification of global DNA methylation in human cells and tissues. PloS One 8:e79044