AI Article Synopsis
- The study focuses on the major histocompatibility complex (MHC), which is crucial for immunity and linked to diseases like cancer, emphasizing the lack of knowledge about its epigenetics despite extensive genetic research.
- Researchers created a detailed 2 Kb resolution genomic tiling array covering the entire 4 Mb MHC region, enabling various epigenetic analyses such as DNA methylation profiling and identification of tissue-specific differentially methylated regions (tDMRs).
- The successful identification of 90 tDMRs in the MHC using the developed array indicates its potential as a valuable tool for future molecular research in medical genomics.
Article Abstract
Background: The major histocompatibility complex (MHC) is essential for human immunity and is highly associated with common diseases, including cancer. While the genetics of the MHC has been studied intensively for many decades, very little is known about the epigenetics of this most polymorphic and disease-associated region of the genome.
Methods: To facilitate comprehensive epigenetic analyses of this region, we have generated a genomic tiling array of 2 Kb resolution covering the entire 4 Mb MHC region. The array has been designed to be compatible with chromatin immunoprecipitation (ChIP), methylated DNA immunoprecipitation (MeDIP), array comparative genomic hybridization (aCGH) and expression profiling, including of non-coding RNAs. The array comprises 7832 features, consisting of two replicates of both forward and reverse strands of MHC amplicons and appropriate controls.
Results: Using MeDIP, we demonstrate the application of the MHC array for DNA methylation profiling and the identification of tissue-specific differentially methylated regions (tDMRs). Based on the analysis of two tissues and two cell types, we identified 90 tDMRs within the MHC and describe their characterisation.
Conclusion: A tiling array covering the MHC region was developed and validated. Its successful application for DNA methylation profiling indicates that this array represents a useful tool for molecular analyses of the MHC in the context of medical genomics.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2430202 | PMC |
| http://dx.doi.org/10.1186/1755-8794-1-19 | DOI Listing |
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