The DOI matches its Crossref record; 25 of the 25 references it cites were found in a registry or an index.
Genome-Wide DNA Methylation Analysis of Systemic Lupus Erythematosus Reveals Persistent Hypomethylation of Interferon Genes and Compositional Changes to CD4+ T-cell Populations
Open accessAbstract
Systemic lupus erythematosus (SLE) is an autoimmune disease with known genetic, epigenetic, and environmental risk factors. To assess the role of DNA methylation in SLE, we collected CD4+ T-cells, CD19+ B-cells, and CD14+ monocytes from 49 SLE patients and 58 controls, and performed genome-wide DNA methylation analysis with Illumina Methylation 450 microarrays. We identified 166 CpGs in B-cells, 97 CpGs in monocytes, and 1,033 CpGs in T-cells with highly significant changes in DNA methylation levels (p < 1 × 10(-8)) among SLE patients. Common to all three cell-types were widespread and severe hypomethylation events near genes involved in interferon signaling (type I). These interferon-related changes were apparent in patients collected during active and quiescent stages of the disease, suggesting that epigenetically-mediated hypersensitivity to interferon persists beyond acute stages of the disease and is independent of circulating interferon levels. This interferon hypersensitivity was apparent in memory, naïve and regulatory T-cells, suggesting that this epigenetic state in lupus patients is established in progenitor cell populations. We also identified a widespread, but lower amplitude shift in methylation in CD4+ T-cells (> 16,000 CpGs at FDR < 1%) near genes involved in cell division and MAPK signaling. These cell type-specific effects are consistent with disease-specific changes in the composition of the CD4+ population and suggest that shifts in the proportion of CD4+ subtypes can be monitored at CpGs with subtype-specific DNA methylation patterns.
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Self-citationA revised estimate of twin concordance in systemic lupus erythematosus
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Cited by
Pathogenesis of Human Systemic Lupus Erythematosus: A Cellular Perspective
Moulton, V. R., Suarez-Fueyo, A., Meidan, E., Li, H., Mizui, M., & Tsokos, G. C. (2017) · Trends in Molecular Medicine · doi:10.1016/j.molmed.2017.05.006 · Cited by 469
Demerath, E. W., Guan, W., Grove, M. L., Aslibekyan, S., Mendelson, M., Zhou, Y.-H., Hedman, Å. K., Sandling, J. K., Li, L.-A., Irvin, M. R., et al. (2015) · Human Molecular Genetics · doi:10.1093/hmg/ddv161 · Cited by 355
Self-citationGuidance for DNA methylation studies: statistical insights from the Illumina EPIC array
Mansell, G., Gorrie-Stone, T. J., Bao, Y., Kumari, M., Schalkwyk, L. S., Mill, J., & Hannon, E. (2019) · BMC Genomics · doi:10.1186/s12864-019-5761-7 · Cited by 340
Olagnier, D., Brandtoft, A. M., Gunderstofte, C., Villadsen, N. L., Krapp, C., Thielke, A. L., Laustsen, A., Peri, S., Hansen, A. L., Bonefeld, L., et al. (2018) · Nature Communications · doi:10.1038/s41467-018-05861-7 · Cited by 282
Hidalgo, B., Irvin, M. R., Sha, J., Zhi, D., Aslibekyan, S., Absher, D., Tiwari, H. K., Kabagambe, E. K., Ordovas, J. M., & Arnett, D. K. (2014) · Diabetes · doi:10.2337/db13-1100 · Cited by 160
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Metadata
- Authors
- Absher, D. M., Li, X., Waite, L. L., Gibson, A., Roberts, K., Edberg, J., Chatham, W. W., & Kimberly, R. P.
- Venue
- PLoS Genetics
- Publisher
- Public Library of Science (PLoS)
- Published
- 2013-08-08
- Volume
- 9
- Issue
- 8
- Pages
- e1003678
- ISSN
- 1553-7390 (ISSN-L)
- 1553-7404
- OpenAlex
- W2055975586
- Cited by
- 351
- References
- 25
- FWCI
- 26.41
- Type
- journal article
- Language
- en
- Open access
- gold
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- CoChat. (2026). Citation check: Genome-Wide DNA Methylation Analysis of Systemic Lupus Erythematosus Reveals Persistent Hypomethylation of Interferon Genes and Compositional Changes to CD4+ T-cell Populations. https://app.cochat.ai/papers/10.1371/journal.pgen.1003678
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- Absher, D. M., Li, X., Waite, L. L., Gibson, A., Roberts, K., Edberg, J., Chatham, W. W., & Kimberly, R. P. (2013). Genome-Wide DNA Methylation Analysis of Systemic Lupus Erythematosus Reveals Persistent Hypomethylation of Interferon Genes and Compositional Changes to CD4+ T-cell Populations. PLoS Genetics. https://doi.org/10.1371/journal.pgen.1003678
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