Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome.

Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Research Abstract Details 

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Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Abstract Text:

Tae-Min Kim,Yeun-Jun Chung,Mun-Gan Rhyu,Myeong Ho Jung,

Given the genomic abundance and susceptibility to DNA methylation, interspersed repetitive sequences in the human genome can be exploited as valuable resources in genome-wide methylation studies. To learn about the relationships between DNA methylation and repeat sequences, we performed a global measurement of CpG dinucleotide frequencies for interspersed repetitive sequences and inferred germline methylation patterns in the human genome. Although extensive CpG depletion was observed for most repeat sequences, those in the proximity to CpG islands have been relatively removed from germline methylation being the potential source of germline activation. We also investigated the CpG depletion patterns of Alu pairs to see whether they might play an active role in germline methylation. Two kinds of Alu pairs, direct or inverted pairs classified according to the orientation, showed contrast CpG depletion patterns with respect to separating distance of Alus, i.e., as two Alu elements are more closely spaced in a pair, a higher extent of CpG depletion was observed in inverted orientation and vice versa for directly repetitive Alu pairs. This suggests that specific organization of repetitive sequences, such as inverted Alu pairs, might play a role in triggering DNA methylation consistent with a homology-dependent methylation hypothesis.

Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Publishing Authors By Initials

TM Kim,YJ Chung,MG Rhyu,MH Jung,

For similar biochemical phenomena, metabolism, and nutrition: biochemical phenomena: molecular structure: base sequence: repetitive sequences, nucleic acid research abstracts see: biochemical phenomena, metabolism, and nutrition: biochemical phenomena: molecular structure: base sequence: repetitive sequences, nucleic acid research

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Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Journal Published:

PUBLICATION TYPE: Research Support, Non-U.S. Gov

Journal: Mammalian genome : official journal of the Interna

VOLUME: 18

Page Numbers: 277-85

Journal Abbreviation: Mamm. Genome

ISSN: 0938-8990

DAY: 19

MONTH: 05

YEAR: 2007

Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Information

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LANGUAGE: eng

NlmUniqueID: 9100916

Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Keywords Mesh Terms:

KEYWORDS: Repetitive Sequences, Nucleic Acid

MESH TERMS: genetics

Chemical & Substance for Abstract: Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome. Information

Substance Name: Nucleotides

Registry Number: 0

Grant and Affiliation Information for Germline methylation patterns inferred from local nucleotide frequency of repetitive sequences in the human genome.

AFFILIATION: Division of Metabolic Disease, Center for Biomedical Science, National Institute of Health, Nokbun-dong 5, Eunpyung-gu, Seoul 122-701, Korea.

Country: United States

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MEDLINETA: Mamm Genome

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