Genome-wide profiling of promoter methylation in human

I. Hatada, M. Fukasawa, M. Kimura, S. Morita, K. Yamada, T. Yoshikawa, S. Yamanaka, C. Endo, A. Sakurada, M. Sato, T. Kondo, A. Horii, T. Ushijima, Hiroyuki Sasaki

Research output: Contribution to journalArticle

101 Citations (Scopus)

Abstract

DNA methylation in the promoter region of a gene is associated with a loss of that gene's expression and plays an important role in gene silencing. The inactivation of tumor-suppressor genes by aberrant methylation in the promoter region is well recognized in carcinogenesis. However, there has been little study in this area when it comes to genome-wide profiling of the promoter methylation. Here, we developed a genome-wide profiling method called Microarray-based Integrated Analysis of Methylation by Isoschizomers to analyse the DNA methylation of promoter regions of 8091 human genes. With this method, resistance to both the methylation-sensitive restriction enzyme HpaII and the methylation-insensitive isoschizomer MspI was compared between samples by using a microarray with promoter regions of the 8091 genes. The reliability of the difference in HpaII resistance was judged using the difference in MspI resistance. We demonstrated the utility of this method by finding epigenetic mutations in cancer. Aberrant hypermethylation is known to inactivate tumour suppressor genes. Using this method, we found that frequency of the aberrant promoter hypermethylation in cancer is higher than previously hypothesized. Aberrant hypomethylation is known to induce activation of oncogenes in cancer. Genome-wide analysis of hypomethylated promoter sequences in cancer demonstrated low CG/GC ratio of these sequences, suggesting that CpG-poor genes are sensitive to demethylation activity in cancer.

Original languageEnglish
Pages (from-to)3059-3064
Number of pages6
JournalOncogene
Volume25
Issue number21
DOIs
Publication statusPublished - May 18 2006

Fingerprint

Methylation
Genetic Promoter Regions
Genome
DNA Methylation
Neoplasms
Tumor Suppressor Genes
Genes
Gene Silencing
Oncogenes
Epigenomics
Carcinogenesis
Gene Expression
Mutation
Enzymes

All Science Journal Classification (ASJC) codes

  • Molecular Biology
  • Genetics
  • Cancer Research

Cite this

Hatada, I., Fukasawa, M., Kimura, M., Morita, S., Yamada, K., Yoshikawa, T., ... Sasaki, H. (2006). Genome-wide profiling of promoter methylation in human. Oncogene, 25(21), 3059-3064. https://doi.org/10.1038/sj.onc.1209331

Genome-wide profiling of promoter methylation in human. / Hatada, I.; Fukasawa, M.; Kimura, M.; Morita, S.; Yamada, K.; Yoshikawa, T.; Yamanaka, S.; Endo, C.; Sakurada, A.; Sato, M.; Kondo, T.; Horii, A.; Ushijima, T.; Sasaki, Hiroyuki.

In: Oncogene, Vol. 25, No. 21, 18.05.2006, p. 3059-3064.

Research output: Contribution to journalArticle

Hatada, I, Fukasawa, M, Kimura, M, Morita, S, Yamada, K, Yoshikawa, T, Yamanaka, S, Endo, C, Sakurada, A, Sato, M, Kondo, T, Horii, A, Ushijima, T & Sasaki, H 2006, 'Genome-wide profiling of promoter methylation in human', Oncogene, vol. 25, no. 21, pp. 3059-3064. https://doi.org/10.1038/sj.onc.1209331
Hatada I, Fukasawa M, Kimura M, Morita S, Yamada K, Yoshikawa T et al. Genome-wide profiling of promoter methylation in human. Oncogene. 2006 May 18;25(21):3059-3064. https://doi.org/10.1038/sj.onc.1209331
Hatada, I. ; Fukasawa, M. ; Kimura, M. ; Morita, S. ; Yamada, K. ; Yoshikawa, T. ; Yamanaka, S. ; Endo, C. ; Sakurada, A. ; Sato, M. ; Kondo, T. ; Horii, A. ; Ushijima, T. ; Sasaki, Hiroyuki. / Genome-wide profiling of promoter methylation in human. In: Oncogene. 2006 ; Vol. 25, No. 21. pp. 3059-3064.
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