ArticleHuman molecular genetics2011
The effects of EBV transformation on gene expression levels and methylation profiles.
Article in Human molecular genetics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 91 papers.
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Who cites it
91 citing papers in PubMed.
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- Association of LINE-1 RNA expressions in cell lines with longevity and reproductive lifespan.medRxiv : the preprint server for health sciences · 2025Article
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- Profiling genetically driven alternative splicing across the Indonesian archipelago.American journal of human genetics · 2024Article
- Sex-biased gene regulation varies across human populations as a result of adaptive evolution.American journal of biological anthropology · 2024Article
- Predicting locus-specific DNA methylation levels in cancer and paracancer tissues.Epigenomics · 2024Article
- Diverse environmental perturbations reveal the evolution and context-dependency of genetic effects on gene expression levels.Genome research · 2022Article
- Peroxisomal very long-chain fatty acid transport is targeted by herpesviruses and the antiviral host response.Communications biology · 2022Article
- 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
- Variants on the UBE2L3/YDJC Autoimmune Disease Risk Haplotype Increase UBE2L3 Expression by Modulating CCCTC-Binding Factor and YY1 Binding.Arthritis & rheumatology (Hoboken, N.J.) · 2022Article
- Untargeted Metabolome- and Transcriptome-Wide Association Study Suggests Causal Genes Modulating Metabolite Concentrations in Urine.Journal of proteome research · 2021Article
- Epigenome-wide association study identifies DNA methylation sites associated with target organ damage in older African Americans.Epigenetics · 2021Article
- In vitro model of perimenopausal depression implicates steroid metabolic and proinflammatory genes.Molecular psychiatry · 2021Article
- Lymphoblastoid Cell Lines as Models to Study Mitochondrial Function in Neurological Disorders.International journal of molecular sciences · 2021Review
- Article
- Genome-Wide Gene Expression Analyses ofCancers · 2020Review
31 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
4 authors.
Funding
Abstract
Epstein-Barr virus (EBV) transformed lymphoblastoid cell lines (LCLs) provide a conveniently accessible and renewable resource for functional genomic studies in humans. The ability to accumulate multidimensional data pertaining to the same individual cell lines, from complete genomic sequences to detailed gene regulatory profiles, further enhances the utility of LCLs as a model system. A lingering concern, however, is that the changes associated with EBV transformation of B cells reduce the usefulness of LCLs as a surrogate model for primary tissues. To evaluate the validity of this concern, we compared global gene expression and methylation profiles between CD20+ primary B cells sampled from six individuals and six independent replicates of transformed LCLs derived from each sample. These data allowed us to obtain a detailed catalog of the genes and pathways whose regulation is affected by EBV transformation. We found that the expression levels and promoter methylation profiles of more than half of the studied genes were affected by the EBV transformation, including enrichments of genes involved in transcription regulation, cell cycle and immune response. However, we show that most of the differences in gene expression levels between LCLs and B cells are of small magnitude, and that LCLs can often recapitulate the naturally occurring gene expression variation in primary B cells. Thus, our observations suggest that inference of the genetic architecture that underlies regulatory variation in LCLs can typically be generalized to primary B cells. In contrast, inference based on functional studies in LCLs may be more limited to the cell lines.
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