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Letter to the editor: critical evaluation of the reliability of DNA methylation probes on the illumina MethylationEPIC v1.0 BeadChip microarrays.

作者信息

Hecker Julian, Weiss Scott T, Lasky-Su Jessica A, DeMeo Dawn L, Lange Christoph

机构信息

Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA.

Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA, USA.

出版信息

Epigenetics. 2024 Dec;19(1):2411470. doi: 10.1080/15592294.2024.2411470. Epub 2024 Oct 4.

DOI:10.1080/15592294.2024.2411470
PMID:39365898
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11457593/
Abstract
摘要

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本文引用的文献

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Epigenetics. 2024 Dec;19(1):2333660. doi: 10.1080/15592294.2024.2333660. Epub 2024 Apr 2.
2
A consistent pattern of slide effects in Illumina DNA methylation BeadChip array data.Illumina DNA 甲基化 BeadChip 阵列数据中存在一致的滑窗效应模式。
Epigenetics. 2023 Dec;18(1):2257437. doi: 10.1080/15592294.2023.2257437. Epub 2023 Sep 20.
3
A computational solution for bolstering reliability of epigenetic clocks: Implications for clinical trials and longitudinal tracking.
一种增强表观遗传时钟可靠性的计算解决方案：对临床试验和纵向跟踪的影响。
Nat Aging. 2022 Jul;2(7):644-661. doi: 10.1038/s43587-022-00248-2. Epub 2022 Jul 15.
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Batch-effect detection, correction and characterisation in Illumina HumanMethylation450 and MethylationEPIC BeadChip array data.Illumina HumanMethylation450 和 MethylationEPIC BeadChip 阵列数据中的批次效应检测、校正和特征描述。
Clin Epigenetics. 2022 Apr 29;14(1):58. doi: 10.1186/s13148-022-01277-9.
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Patterns of Reliability: Assessing the Reproducibility and Integrity of DNA Methylation Measurement.可靠性模式：评估DNA甲基化测量的可重复性和完整性。
Patterns (N Y). 2020 May 8;1(2). doi: 10.1016/j.patter.2020.100014. Epub 2020 Apr 23.
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The correlation of methylation levels measured using Illumina 450K and EPIC BeadChips in blood samples.在血液样本中使用Illumina 450K和EPIC芯片测量的甲基化水平的相关性。
Epigenomics. 2017 Nov;9(11):1363-1371. doi: 10.2217/epi-2017-0078. Epub 2017 Aug 15.
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Evaluation of microarray-based DNA methylation measurement using technical replicates: the Atherosclerosis Risk In Communities (ARIC) Study.使用技术重复样本评估基于微阵列的DNA甲基化测量：社区动脉粥样硬化风险（ARIC）研究
BMC Bioinformatics. 2014 Sep 19;15(1):312. doi: 10.1186/1471-2105-15-312.
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The sva package for removing batch effects and other unwanted variation in high-throughput experiments.sva 包用于去除高通量实验中的批次效应和其他不需要的变异。
Bioinformatics. 2012 Mar 15;28(6):882-3. doi: 10.1093/bioinformatics/bts034. Epub 2012 Jan 17.
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Adjusting batch effects in microarray expression data using empirical Bayes methods.使用经验贝叶斯方法调整微阵列表达数据中的批次效应。
Biostatistics. 2007 Jan;8(1):118-27. doi: 10.1093/biostatistics/kxj037. Epub 2006 Apr 21.