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Comparative (Computational) Analysis of the DNA Methylation Status of Trinucleotide Repeat Expansion Diseases
Joint Authors
Taylor, Simon J. E.
Payne, Annette
Pook, Mark A.
Ghorbani, Mohammadmersad
Source
Issue
Vol. 2013, Issue 2013 (31 Dec. 2013), pp.1-9, 9 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2013-12-23
Country of Publication
Egypt
No. of Pages
9
Main Subjects
Abstract EN
Previous studies have examined DNA methylation in different trinucleotide repeat diseases.
We have combined this data and used a pattern searching algorithm to identify motifs in the DNA surrounding aberrantly methylated CpGs found in the DNA of patients with one of the three trinucleotide repeat (TNR) expansion diseases: fragile X syndrome (FRAXA), myotonic dystrophy type I (DM1), or Friedreich’s ataxia (FRDA).
We examined sequences surrounding both the variably methylated (VM) CpGs, which are hypermethylated in patients compared with unaffected controls, and the nonvariably methylated CpGs which remain either always methylated (AM) or never methylated (NM) in both patients and controls.
Using the J48 algorithm of WEKA analysis, we identified that two patterns are all that is necessary to classify our three regions CCGG* which is found in VM and not in AM regions and AATT* which distinguished between NM and VM + AM using proportional frequency.
Furthermore, comparing our software with MEME software, we have demonstrated that our software identifies more patterns than MEME in these short DNA sequences.
Thus, we present evidence that the DNA sequence surrounding CpG can influence its susceptibility to be de novo methylated in a disease state associated with a trinucleotide repeat.
American Psychological Association (APA)
Ghorbani, Mohammadmersad& Taylor, Simon J. E.& Pook, Mark A.& Payne, Annette. 2013. Comparative (Computational) Analysis of the DNA Methylation Status of Trinucleotide Repeat Expansion Diseases. Journal of Nucleic Acids،Vol. 2013, no. 2013, pp.1-9.
https://search.emarefa.net/detail/BIM-490761
Modern Language Association (MLA)
Ghorbani, Mohammadmersad…[et al.]. Comparative (Computational) Analysis of the DNA Methylation Status of Trinucleotide Repeat Expansion Diseases. Journal of Nucleic Acids No. 2013 (2013), pp.1-9.
https://search.emarefa.net/detail/BIM-490761
American Medical Association (AMA)
Ghorbani, Mohammadmersad& Taylor, Simon J. E.& Pook, Mark A.& Payne, Annette. Comparative (Computational) Analysis of the DNA Methylation Status of Trinucleotide Repeat Expansion Diseases. Journal of Nucleic Acids. 2013. Vol. 2013, no. 2013, pp.1-9.
https://search.emarefa.net/detail/BIM-490761
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-490761