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胎盘组织处理的技术要点及其对全基因组 DNA 甲基化分析的后续影响。

Technical considerations for placental tissue processing and the subsequent impact on genome-wide DNA methylation analysis.

机构信息

Developing Brain Institute, Center for Prenatal, Neonatal and Maternal Health Research, Children's Research Institute, Children's National Hospital, Washington, DC, USA.

Department of Pediatrics, The George Washington University, Washington, DC, USA.

出版信息

Clin Epigenetics. 2024 Sep 16;16(1):128. doi: 10.1186/s13148-024-01741-8.

DOI:10.1186/s13148-024-01741-8
PMID:39285447
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11403961/
Abstract

To assess the impact of postnatal processing on placental DNA methylation, array data from flash-frozen placental tissue was compared to perfluorocarbon-immersed and formalin-fixed paraffin-embedded placental tissue. We observed that tissue exposed to perfluorocarbon showed no significant DNA methylation differences when compared to unprocessed tissue, while formalin processing altered the quality and reliability of the data produced on the DNA methylation array platform. Placental DNA methylation allows for the study of gene-environment interactions that influence the fetal environment and development. Our study highlights that placental post-processing techniques must be considered in the evaluation and interpretation of epigenetic studies.

摘要

为了评估产后处理对胎盘 DNA 甲基化的影响,我们比较了来自快速冷冻胎盘组织的阵列数据与全氟碳浸泡和福尔马林固定石蜡包埋胎盘组织的阵列数据。我们观察到,与未经处理的组织相比,暴露于全氟碳的组织没有显示出明显的 DNA 甲基化差异,而福尔马林处理改变了 DNA 甲基化阵列平台上产生的数据的质量和可靠性。胎盘 DNA 甲基化允许研究影响胎儿环境和发育的基因-环境相互作用。我们的研究强调,在评估和解释表观遗传学研究时,必须考虑胎盘产后处理技术。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3019/11403961/a62264fabb53/13148_2024_1741_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3019/11403961/a62264fabb53/13148_2024_1741_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3019/11403961/a62264fabb53/13148_2024_1741_Fig1_HTML.jpg

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本文引用的文献

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BMC Med Genomics. 2023 Oct 30;16(1):268. doi: 10.1186/s12920-023-01707-4.
2
Fresh and frozen cardiac tissue are comparable in DNA methylation array β-values, but formalin-fixed, paraffin-embedded tissue may overestimate DNA methylation levels.新鲜和冷冻的心脏组织在 DNA 甲基化阵列 β 值方面具有可比性,但福尔马林固定、石蜡包埋的组织可能会高估 DNA 甲基化水平。
Sci Rep. 2023 Sep 29;13(1):16381. doi: 10.1038/s41598-023-43788-2.
3
Nucleated red blood cells explain most of the association between DNA methylation and gestational age.
有核红细胞解释了 DNA 甲基化与胎龄之间的大部分关联。
Commun Biol. 2023 Feb 27;6(1):224. doi: 10.1038/s42003-023-04584-w.
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DNA quality evaluation of formalin-fixed paraffin-embedded heart tissue for DNA methylation array analysis.甲醛固定石蜡包埋心脏组织的 DNA 质量评估用于 DNA 甲基化阵列分析。
Sci Rep. 2023 Feb 3;13(1):2004. doi: 10.1038/s41598-023-29120-y.
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DNA methylation patterns associated with konzo in Sub-Saharan Africa.与撒哈拉以南非洲科恩氏病相关的 DNA 甲基化模式。
Clin Epigenetics. 2022 Dec 19;14(1):179. doi: 10.1186/s13148-022-01372-x.
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