ArticleEuropean journal of human genetics : EJHG2012
Methylome-wide comparison of human genomic DNA extracted from whole blood and from EBV-transformed lymphocyte cell lines.
Article in European journal of human genetics : EJHG, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- A high-throughput real-time PCR tissue-of-origin test to distinguish blood from lymphoblastoid cell line DNA for (epi)genomic studies.Scientific reports · 2022Article
- Epigenetics of single-site and multi-site atherosclerosis in African Americans from the Genetic Epidemiology Network of Arteriopathy (GENOA).Clinical epigenetics · 2022Article
- Epigenome-wide association study identifies DNA methylation sites associated with target organ damage in older African Americans.Epigenetics · 2021Article
- Comparison of methylation patterns generated from genomic and cell-line derived DNA using the Illumina Infinium MethylationEPIC BeadChip array.BMC research notes · 2019Article
- Differential DNA methylation profiles of human B lymphocytes and Epstein-Barr virus-immortalized B lymphocytes.Chinese journal of cancer research = Chung-kuo yen cheng yen chiu · 2018Article
- Genome-wide DNA methylation analysis reveals hypomethylation in the low-CpG promoter regions in lymphoblastoid cell lines.Human genomics · 2017Article
- Differences between the genomes of lymphoblastoid cell lines and blood-derived samples.Advances in genomics and genetics · 2017Article
- High density methylation QTL analysis in human blood via next-generation sequencing of the methylated genomic DNA fraction.Genome biology · 2015Article
- Combined Whole Methylome and Genomewide Association Study Implicates CNTN4 in Alcohol Use.Alcoholism, clinical and experimental research · 2015Article
- Establishing the UK DNA Bank for motor neuron disease (MND).BMC genetics · 2015Article
- A methylome-wide study of aging using massively parallel sequencing of the methyl-CpG-enriched genomic fraction from blood in over 700 subjects.Human molecular genetics · 2014Article
- Epigenomic elements enriched in the promoters of autoimmunity susceptibility genes.Epigenetics · 2014Article
- Large-scale hypomethylated blocks associated with Epstein-Barr virus-induced B-cell immortalization.Genome research · 2014Article
- Epigenetics meets metabolomics: an epigenome-wide association study with blood serum metabolic traits.Human molecular genetics · 2014Article
- (Epi)Genetic analyses of age-related macular degeneration: case-control and discordant twin studies.Human heredity · 2014Article
- Assessment of patient-derived tumour xenografts (PDXs) as a discovery tool for cancer epigenomics.Genome medicine · 2014Article
- MethylPCA: a toolkit to control for confounders in methylome-wide association studies.BMC bioinformatics · 2013Article
- MBD-seq as a cost-effective approach for methylome-wide association studies: demonstration in 1500 case--control samples.Epigenomics · 2012Article
- Pharmacogenomics of chemotherapeutic susceptibility and toxicity.Genome medicine · 2012Review
Corrections and comments
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Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA from Epstein-Barr virus-transformed lymphocyte cell lines (LCLs) has proven useful for studies of genetic sequence polymorphisms. Whether LCL DNA is suitable for methylation studies is less clear. We conduct a genome-wide methylation investigation using an array set with 45 million probes to investigate the methylome of LCL DNA and technical duplicates of WB DNA from the same 10 individuals. We focus specifically on methylation sites that show variation between individuals and, therefore, are potentially useful as biomarkers. The sample correlations for the methylation variable probes ranged from 0.69 to 0.78 for the WB duplicates and from 0.27 to 0.72 for WB vs LCL. To compare the pattern of the methylation signals, we grouped adjacent probes based on their inter-correlations. These analyses showed ∼29 000 and ∼14 000 blocks in WB and LCL, respectively. Merely 31% of the methylated regions detected in WB were detectable in LCLs. Furthermore, we observed significant differences in mean difference between WB and LCL as compared with duplicates of WB (P-value =2.2 × 10(-16)). Our study shows that there are substantial differences in the DNA methylation patterns between LCL and WB. Thus, LCL DNA should not be used as a proxy for WB DNA in methylome-wide studies.
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