Exploring the utility of human DNA methylation arrays for profiling mouse genomic DNA

Nicholas C. Wong, Jane Ng, Nathan E. Hall, Sebastian Lunke, Marika Salmanidis, Gabriela Brumatti, Paul G. Ekert, Jeffrey M. Craig, Richard Saffery

Research output: Contribution to journalArticleResearchpeer-review

Abstract

Illumina Infinium Human Methylation (HM) BeadChips are widely used for measuring genome-scale DNA methylation, particularly in relation to epigenome-wide association studies (EWAS) studies. The methylation profile of human samples can be assessed accurately and reproducibly using the HM27 BeadChip (27,578 CpG sites) or its successor, the HM450 BeadChip (482,421 CpG sites). To date no mouse equivalent has been developed, greatly hindering the application of this methodology to the wide range of valuable murine models of disease and development currently in existence. We found 1308 and 13,715 probes from HM27 and HM450 BeadChip respectively, uniquely matched the bisulfite converted reference mouse genome (mm9). We demonstrate reproducible measurements of DNA methylation at these probes in a range of mouse tissue samples and in a murine cell line model of acute myeloid leukaemia. In the absence of a mouse counterpart, the Infinium Human Methylation BeadChip arrays have utility for methylation profiling in non-human species.

Original languageEnglish
Pages (from-to)38-46
Number of pages9
JournalGenomics
Volume102
Issue number1
DOIs
Publication statusPublished - 1 Jul 2013
Externally publishedYes

Keywords

  • DNA methylation
  • Epigenetics
  • Human
  • Infinium BeadChip
  • Mouse
  • Xeno-array

Cite this

Wong, N. C., Ng, J., Hall, N. E., Lunke, S., Salmanidis, M., Brumatti, G., ... Saffery, R. (2013). Exploring the utility of human DNA methylation arrays for profiling mouse genomic DNA. Genomics, 102(1), 38-46. https://doi.org/10.1016/j.ygeno.2013.04.014
Wong, Nicholas C. ; Ng, Jane ; Hall, Nathan E. ; Lunke, Sebastian ; Salmanidis, Marika ; Brumatti, Gabriela ; Ekert, Paul G. ; Craig, Jeffrey M. ; Saffery, Richard. / Exploring the utility of human DNA methylation arrays for profiling mouse genomic DNA. In: Genomics. 2013 ; Vol. 102, No. 1. pp. 38-46.
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Wong, NC, Ng, J, Hall, NE, Lunke, S, Salmanidis, M, Brumatti, G, Ekert, PG, Craig, JM & Saffery, R 2013, 'Exploring the utility of human DNA methylation arrays for profiling mouse genomic DNA', Genomics, vol. 102, no. 1, pp. 38-46. https://doi.org/10.1016/j.ygeno.2013.04.014

Exploring the utility of human DNA methylation arrays for profiling mouse genomic DNA. / Wong, Nicholas C.; Ng, Jane; Hall, Nathan E.; Lunke, Sebastian; Salmanidis, Marika; Brumatti, Gabriela; Ekert, Paul G.; Craig, Jeffrey M.; Saffery, Richard.

In: Genomics, Vol. 102, No. 1, 01.07.2013, p. 38-46.

Research output: Contribution to journalArticleResearchpeer-review

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