Quality control measures for placental sample purity in DNA methylation array analyses

Qianhui Wan, Shalem Yiner-Lee Leemaqz, Stephen Martin Pederson, Dylan McCullough, Dale Christopher McAninch, Tanja Jankovic-Karasoulos, Melanie Denise Smith, Konstantinos Justinian Bogias, Ning Liu, Jimmy Breen, Claire Trelford Roberts, Tina Bianco-Miotto

Research output: Contribution to journalArticle

Abstract

The purity of tissue samples can affect the accuracy and utility of DNA methylation array analyses. This is particularly important for the placenta which is globally hypomethylated compared to other tissues. Placental villous tissue from early pregnancy terminations can be difficult to separate from non-villous tissue, resulting in potentially inaccurate results. We used several methods to identify mixed placenta samples using DNA methylation array datasets from our laboratory and those contained in the NCBI GEO database, highlighting the importance of determining sample purity during quality control processes.

Original languageEnglish
Pages (from-to)8-11
Number of pages4
JournalPlacenta
Volume88
DOIs
Publication statusE-pub ahead of print - 17 Sep 2019

Keywords

  • DNA methylation
  • Human placenta
  • Methylation Bead Chip
  • Quality control

ASJC Scopus subject areas

  • Reproductive Medicine
  • Obstetrics and Gynaecology
  • Developmental Biology

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