Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Oncology Letters
      • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Biomedical Reports
      • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • Information for Authors
    • Information for Reviewers
    • Information for Librarians
    • Information for Advertisers
    • Conferences
  • Language Editing
Spandidos Publications Logo
  • About
    • About Spandidos
    • Aims and Scopes
    • Abstracting and Indexing
    • Editorial Policies
    • Reprints and Permissions
    • Job Opportunities
    • Terms and Conditions
    • Contact
  • Journals
    • All Journals
    • Biomedical Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Experimental and Therapeutic Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Epigenetics
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Functional Nutrition
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Molecular Medicine
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • International Journal of Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Medicine International
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular and Clinical Oncology
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Molecular Medicine Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Letters
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • Oncology Reports
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
    • World Academy of Sciences Journal
      • Information for Authors
      • Editorial Policies
      • Editorial Board
      • Aims and Scope
      • Abstracting and Indexing
      • Bibliographic Information
      • Archive
  • Articles
  • Information
    • For Authors
    • For Reviewers
    • For Librarians
    • For Advertisers
    • Conferences
  • Language Editing
Login Register Submit
  • This site uses cookies
  • You can change your cookie settings at any time by following the instructions in our Cookie Policy. To find out more, you may read our Privacy Policy.

    I agree
Search articles by DOI, keyword, author or affiliation
Search
Advanced Search
presentation
Molecular Medicine Reports
Join Editorial Board Propose a Special Issue
Print ISSN: 1791-2997 Online ISSN: 1791-3004
Journal Cover
July-2015 Volume 12 Issue 1

Full Size Image

Sign up for eToc alerts
Recommend to Library

Journals

International Journal of Molecular Medicine

International Journal of Molecular Medicine

International Journal of Molecular Medicine is an international journal devoted to molecular mechanisms of human disease.

International Journal of Oncology

International Journal of Oncology

International Journal of Oncology is an international journal devoted to oncology research and cancer treatment.

Molecular Medicine Reports

Molecular Medicine Reports

Covers molecular medicine topics such as pharmacology, pathology, genetics, neuroscience, infectious diseases, molecular cardiology, and molecular surgery.

Oncology Reports

Oncology Reports

Oncology Reports is an international journal devoted to fundamental and applied research in Oncology.

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine

Experimental and Therapeutic Medicine is an international journal devoted to laboratory and clinical medicine.

Oncology Letters

Oncology Letters

Oncology Letters is an international journal devoted to Experimental and Clinical Oncology.

Biomedical Reports

Biomedical Reports

Explores a wide range of biological and medical fields, including pharmacology, genetics, microbiology, neuroscience, and molecular cardiology.

Molecular and Clinical Oncology

Molecular and Clinical Oncology

International journal addressing all aspects of oncology research, from tumorigenesis and oncogenes to chemotherapy and metastasis.

World Academy of Sciences Journal

World Academy of Sciences Journal

Multidisciplinary open-access journal spanning biochemistry, genetics, neuroscience, environmental health, and synthetic biology.

International Journal of Functional Nutrition

International Journal of Functional Nutrition

Open-access journal combining biochemistry, pharmacology, immunology, and genetics to advance health through functional nutrition.

International Journal of Epigenetics

International Journal of Epigenetics

Publishes open-access research on using epigenetics to advance understanding and treatment of human disease.

Medicine International

Medicine International

An International Open Access Journal Devoted to General Medicine.

Journal Cover
July-2015 Volume 12 Issue 1

Full Size Image

Sign up for eToc alerts
Recommend to Library

  • Article
  • Citations
    • Cite This Article
    • Download Citation
    • Create Citation Alert
    • Remove Citation Alert
    • Cited By
  • Similar Articles
    • Related Articles (in Spandidos Publications)
    • Similar Articles (Google Scholar)
    • Similar Articles (PubMed)
  • Download PDF
  • Download XML
  • View XML
Article

Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes

  • Authors:
    • Fei Liu
    • Qianqian Sun
    • Lingxiao Wang
    • Shuangshuang Nie
    • Jun Li
  • View Affiliations / Copyright

    Affiliations: Department of Nephrology, West China Hospital of Sichuan University, Chengdu, Sichuan 610041, P.R. China, Department of Geriatrics, West China Hospital of Sichuan University, Chengdu, Sichuan 610041, P.R. China, Geriatric Department, The Fifth People's Hospital of Chengdu City, Chengdu, Sichuan 610041, P.R. China, Department of Geriatrics, West China Medical College of Sichuan University, Chengdu, Sichuan 610041, P.R. China
  • Pages: 351-356
    |
    Published online on: March 6, 2015
       https://doi.org/10.3892/mmr.2015.3452
  • Expand metrics +
Metrics: Total Views: 0 (Spandidos Publications: | PMC Statistics: )
Metrics: Total PDF Downloads: 0 (Spandidos Publications: | PMC Statistics: )
Cited By (CrossRef): 0 citations Loading Articles...

This article is mentioned in:



Abstract

The present study aimed to examine the changes in DNA methylation of gene promoters associated with type 2 diabetes (T2D). The DNA methylation profile dataset GSE38291 was downloaded from the Gene Expression Omnibus database. A paired t‑test was used to analyze differences in the DNA methylation of gene promoters between T2D and normal muscle samples. Gene Ontology (GO) enrichment analysis was performed using online tool, The Database for Annotation, Visualization and Integrated Discovery. Whole‑Genome rVISTA was used to analyze the enriched transcription factor (TF) binding sites upstream of the transcription start site in the differentially methylated genes. A total of 38 genes, including Sirtuin 1, N‑acetyltransferase 6, phospholipase A2 group XIIB and nuclear factor of activated T cells calcineurin‑dependent 1, were identified to be differentially methylated between these two groups. One GO term, DNA geometric change (GO:0032392), was significantly enriched (P<0.05) by the hyper‑methylated genes. In addition, the binding sites of one gene, zinc finger E‑box binding homeobox 1, and three TFs, methyl CpG binding protein 2, TFEB and TFAP4, were significantly enriched in the hyper‑ and hypo‑methylated genes, respectively. The resulting T2D‑associated genes and potential TFs provided a novel insight into the molecular mechanisms underlying the pathology of T2D. These genes may become promising target genes for the development of treatments for T2D.
View Figures

Figure 1

Figure 2

View References

1 

Parving H-H, Brenner BM, McMurray JJ, et al ALTITUDE Investigators: Cardiorenal end points in a trial of aliskiren for type 2 diabetes. N Engl J Med. 367:2204–2213. 2012. View Article : Google Scholar : PubMed/NCBI

2 

Kitada M and Koya D: SIRT1 in type 2 diabetes: Mechanisms and therapeutic potential. Diabetes Metab J. 37:315–325. 2013. View Article : Google Scholar : PubMed/NCBI

3 

Kahn SE: The relative contributions of insulin resistance and beta-cell dysfunction to the pathophysiology of Type 2 diabetes. Diabetologia. 46:3–19. 2003.PubMed/NCBI

4 

Spranger J, Kroke A, Möhlig M, et al: Adiponectin and protection against type 2 diabetes mellitus. Lancet. 361:226–228. 2003. View Article : Google Scholar : PubMed/NCBI

5 

Hofsø D, Jenssen T, Hager H, Røislien J and Hjelmesaeth J: Fasting plasma glucose in the screening for type 2 diabetes in morbidly obese subjects. Obes Surg. 20:302–307. 2010. View Article : Google Scholar

6 

Zhang P, Zhang X, Brown J, et al: Global healthcare expenditure on diabetes for 2010 and 2030. Diabetes Res Clin Pract. 87:293–301. 2010. View Article : Google Scholar : PubMed/NCBI

7 

Liebl A, Mata M and Eschwège E; ODE-2 Advisory Board: Evaluation of risk factors for development of complications in Type II diabetes in Europe. Diabetologia. 45:S23–S28. 2002. View Article : Google Scholar : PubMed/NCBI

8 

Sjöström L, Lindroos A-K, Peltonen M, et al Swedish Obese Subjects Study Scientific Group: Lifestyle, diabetes, and cardiovascular risk factors 10 years after bariatric surgery. N Engl J Med. 351:2683–2693. 2004. View Article : Google Scholar : PubMed/NCBI

9 

Barres R and Zierath JR: DNA methylation in metabolic disorders. Am J Clin Nutr. 93:897S–900S. 2011. View Article : Google Scholar : PubMed/NCBI

10 

Takizawa T, Nakashima K, Namihira M, et al: DNA methylation is a critical cell-intrinsic determinant of astrocyte differentiation in the fetal brain. Dev Cell. 1:749–758. 2001. View Article : Google Scholar : PubMed/NCBI

11 

Robertson KD: DNA methylation and human disease. Nat Rev Genet. 6:597–610. 2005. View Article : Google Scholar : PubMed/NCBI

12 

Rönn T, Poulsen P, Hansson O, et al: Age influences DNA methylation and gene expression of COX7A1 in human skeletal muscle. Diabetologia. 51:1159–1168. 2008. View Article : Google Scholar : PubMed/NCBI

13 

Ling C, Poulsen P, Carlsson E, et al: Multiple environmental and genetic factors influence skeletal muscle PGC-1α and PGC-1β gene expression in twins. J Clin Invest. 114:1518–1526. 2004. View Article : Google Scholar : PubMed/NCBI

14 

Ling C, Poulsen P, Simonsson S, et al: Genetic and epigenetic factors are associated with expression of respiratory chain component NDUFB6 in human skeletal muscle. J Clin Invest. 117:3427–3435. 2007. View Article : Google Scholar : PubMed/NCBI

15 

Jensen CB, Storgaard H, Madsbad S, Richter EA and Vaag AA: Altered skeletal muscle fiber composition and size precede whole-body insulin resistance in young men with low birth weight. J Clin Endocrinol Metab. 92:1530–1534. 2007. View Article : Google Scholar : PubMed/NCBI

16 

Barrett T, Wilhite SE, Ledoux P, et al: NCBI GEO: archive for functional genomics data sets - update. Nucleic Acids Res. 41:D991–D995. 2013. View Article : Google Scholar

17 

Du P, Zhang X, Huang CC, et al: Comparison of Beta-value and M-value methods for quantifying methylation levels by microarray analysis. BMC Bioinformatics. 11:5872010. View Article : Google Scholar : PubMed/NCBI

18 

Da Wei Huang BTS, Sherman BT and Lempicki RA: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 4:44–57. 2009. View Article : Google Scholar : PubMed/NCBI

19 

Dubchak I, Munoz M, Poliakov A, et al: Whole-Genome rVISTA: a tool to determine enrichment of transcription factor binding sites in gene promoters from transcriptomic data. Bioinformatics. 29:2059–2061. 2013. View Article : Google Scholar : PubMed/NCBI

20 

Wingender E, Dietze P, Karas H and Knüppel R: TRANSFAC: A database on transcription factors and their DNA binding sites. Nucleic Acids Res. 24:238–241. 1996. View Article : Google Scholar : PubMed/NCBI

21 

Kume S, Uzu T, Kashiwagi A and Koya D: SIRT1, a calorie restriction mimetic, in a new therapeutic approach for type 2 diabetes mellitus and diabetic vascular complications. Endocr Metab Immune Disord Drug Targets. 10:16–24. 2010. View Article : Google Scholar : PubMed/NCBI

22 

Sharma S, Misra CS, Arumugam S, et al: Antidiabetic activity of resveratrol, a known SIRT1 activator in a genetic model for type 2 diabetes. Phytother Res. 25:67–73. 2011. View Article : Google Scholar

23 

Bordone L, Motta MC, Picard F, et al: Sirt1 regulates insulin secretion by repressing UCP2 in pancreatic β cells. PLoS Biol. 4:e312006. View Article : Google Scholar

24 

Bhakta S, Besra GS, Upton AM, et al: Arylamine N-acetyltransferase is required for synthesis of mycolic acids and complex lipids in Mycobacterium bovis BCG and represents a novel drug target. J Exp Med. 199:1191–1199. 2004. View Article : Google Scholar : PubMed/NCBI

25 

Aljakna A, Choi S, Savage H, et al: Pla2g12b and Hpn are genes identified by mouse ENU mutagenesis that affect HDL cholesterol. PLoS One. 7:e431392012. View Article : Google Scholar : PubMed/NCBI

26 

Blum M, Grant DM, Mcbride W, Heim M and Meyer UA: Human arylamine N-acetyltransferase genes: isolation, chromosomal localization, and functional expression. DNA Cell Biol. 9:193–203. 1990. View Article : Google Scholar : PubMed/NCBI

27 

Heit JJ, Apelqvist AA, Gu X, et al: Calcineurin/NFAT signalling regulates pancreatic β-cell growth and function. Nature. 443:345–349. 2006. View Article : Google Scholar : PubMed/NCBI

28 

Papadopoulou V, Postigo A, Sánchez-Tilló E, Porter AC and Wagner SD: ZEB1 and CtBP form a repressive complex at a distal promoter element of the BCL6 locus. Biochem J. 427:541–550. 2010. View Article : Google Scholar : PubMed/NCBI

29 

Karnik SK, Chen H, McLean GW, et al: Menin controls growth of pancreatic β-cells in pregnant mice and promotes gestational diabetes mellitus. Science. 318:806–809. 2007. View Article : Google Scholar : PubMed/NCBI

30 

Nan X, Ng HH, Johnson CA, et al: Transcriptional repression by the methyl-CpG-binding protein MeCP2 involves a histone deacetylase complex. Nature. 393:386–389. 1998. View Article : Google Scholar : PubMed/NCBI

31 

Li E, Beard C and Jaenisch R: Role for DNA methylation in genomic imprinting. Nature. 366:362–365. 1993. View Article : Google Scholar : PubMed/NCBI

Related Articles

  • Abstract
  • View
  • Download
  • Twitter
Copy and paste a formatted citation
Spandidos Publications style
Liu F, Sun Q, Wang L, Nie S and Li J: Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes. Mol Med Rep 12: 351-356, 2015.
APA
Liu, F., Sun, Q., Wang, L., Nie, S., & Li, J. (2015). Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes. Molecular Medicine Reports, 12, 351-356. https://doi.org/10.3892/mmr.2015.3452
MLA
Liu, F., Sun, Q., Wang, L., Nie, S., Li, J."Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes". Molecular Medicine Reports 12.1 (2015): 351-356.
Chicago
Liu, F., Sun, Q., Wang, L., Nie, S., Li, J."Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes". Molecular Medicine Reports 12, no. 1 (2015): 351-356. https://doi.org/10.3892/mmr.2015.3452
Copy and paste a formatted citation
x
Spandidos Publications style
Liu F, Sun Q, Wang L, Nie S and Li J: Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes. Mol Med Rep 12: 351-356, 2015.
APA
Liu, F., Sun, Q., Wang, L., Nie, S., & Li, J. (2015). Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes. Molecular Medicine Reports, 12, 351-356. https://doi.org/10.3892/mmr.2015.3452
MLA
Liu, F., Sun, Q., Wang, L., Nie, S., Li, J."Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes". Molecular Medicine Reports 12.1 (2015): 351-356.
Chicago
Liu, F., Sun, Q., Wang, L., Nie, S., Li, J."Bioinformatics analysis of abnormal DNA methylation in muscle samples from monozygotic twins discordant for type 2 diabetes". Molecular Medicine Reports 12, no. 1 (2015): 351-356. https://doi.org/10.3892/mmr.2015.3452
Follow us
  • Twitter
  • LinkedIn
  • Facebook
About
  • Spandidos Publications
  • Careers
  • Cookie Policy
  • Privacy Policy
How can we help?
  • Help
  • Live Chat
  • Contact
  • Email to our Support Team