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We genome-widely identified inter-individually variable CpGs based on whole-genome bisulfite sequencing of ~100 Japanese. In this page, we provide summary data for ~24 million CpGs.

The summary data include the following columns.
  • Chr: chromosome
  • Pos: chromosomal position
  • Median: Median DNA methylation level among individuals
  • RI: Reference interval of DNA methylation level, which is an good indicator of variability
  • Mean: Mean of DNA methylation level
  • SD: Standard deviation of DNA methylation level
  • cgIG: CpG site ID from HM450 and/or EPIC array. NA means the site is not assayed by those arrays.
  • Promoter: 1 means the site is located in a promoter region. Otherwise, 0.
  • Exon: 1 means the site is located in an exon region. Otherwise, 0.
  • Intron: 1 means the site is located in an intron region. Otherwise, 0.
  • CGI: 1 means the site is located in a CpG island region. Otherwise, 0.
  • CGI_shore: 1 means the site is located in a CpG island shore region. Otherwise, 0.
  • Repeat: 1 means the site is located in a repeat region. Otherwise, 0.
  • TFBS: 1 means the site is located in a transcription factor binding region. Otherwise, 0.
  • TFBS_flanking: 1 means the site is located in a flanking regions of transcription factor binding sites. Otherwise, 0.
  • DHS: 1 means the site is located in a DNase I hypersensitive region. Otherwise, 0.
  • H3k27ac: 1 means the site is located in a histone H3 acetyl Lys27 region. Otherwise, 0.
  • H3k4me1: 1 means the site is located in a H3 monomethyl Lys4 regions. Otherwise, 0.
  • H3k4me3: 1 means the site is located in a H3 trimethyl Lys4 regions. Otherwise, 0.

Summary data for monocytes - download from here.
Summary data for CD4+ T cells - download from here.

Variable CpG sites will be easily extracted from the above summary data by selecting CpGs with RI ≥ 30%.

The detailed methods and results will be published elsewhere, soon.
Please cite the upcoming paper when you use the above summary data.


Citation

  • T. Hachiya et al. "Genome-wide identification of inter-individually variable DNA methylation sites improves the efficacy of epigenetic association studies" NPJ Genom Med. in press, 2017
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