Exploring Genome-wide DNA Methylation Profiles Altered in Kashin-Beck Disease Using Infinium Human Methylation 450 Bead Chips
To understand how differentially methylated genes（DMGs）might affect the pathogenesis of Kashin-Beck disease（KBD）.Genome-wide methylation profiling of whole blood from 12matched KBD and controls pairs was performed using a high-resolution Infinium 450 K methylation array.In total,97 CpG sites were di...
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| Published in | Biomedical and environmental sciences Vol. 29; no. 7; pp. 539 - 543 |
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| Main Authors | , , , , , |
| Format | Journal Article |
| Language | English |
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Netherlands
Elsevier B.V
01.07.2016
Department of Pediatrics, The First Affiliated Hospital of the Medical Col ege of Xi’an Jiaotong University, Xi’an 710061, Shannxi, China%Department of 0ncosurgery, The First Affiliated Hospital of the Medical College of Xi’an Jiaotong University, Xi’an 710061, Shannxi, China |
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| Abstract | To understand how differentially methylated genes（DMGs）might affect the pathogenesis of Kashin-Beck disease（KBD）.Genome-wide methylation profiling of whole blood from 12matched KBD and controls pairs was performed using a high-resolution Infinium 450 K methylation array.In total,97 CpG sites were differentially |
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| AbstractList | To understand how differentially methylated genes (DMGs) might affect the pathogenesis of Kashin-Beck disease (KBD). Genome-wide methylation profiling of whole blood from 12 matched KBD and controls pairs was performed using a high-resolution Infinium 450 K methylation array. In total, 97 CpG sites were differentially methylated in KBD compared to the normal controls; of these sites, 36 sites were significantly hypermethylated (covering 22 genes) and 61 sites were significantly hypomethylated (covering 34 genes). Of these genes, 14 significant pathways were identified, the most significant P value pathway was type I diabetes mellitus pathway and pathways associated with autoimmune diseases and inflammatory diseases were included in this study. Subsequently, 4 CpG sites in HLA-DRB1 were validated using bisulfite sequencing polymerase chain reaction (BSP) in articular cartilage, and the results showed significant differences in the methylation status between KBD and controls, consistent with the results of the high-resolution array. These results suggested that differences in genome-wide DNA methylation exist between KBD and the controls, and the biological pathways support the autoimmune disease and inflammatory disease hypothesis of KBD. To understand how differentially methylated genes（DMGs）might affect the pathogenesis of Kashin-Beck disease（KBD）.Genome-wide methylation profiling of whole blood from 12matched KBD and controls pairs was performed using a high-resolution Infinium 450 K methylation array.In total,97 CpG sites were differentially |
| Author | SHI Xiao Wei SHI Bo Hui LYU Ai Li ZHANG Feng ZHOU Tian Tian GUO Xiong |
| AuthorAffiliation | Department of Pediatrics, The First Affiliated Hospital of the Medical College of Xi＇an Jiaotong University, Xi＇an 710061, Shannxi, China School of Public Health, Health Science Center, Xi＇an Jiaotong University, Key Laboratory of Environment and Gene Related Diseases of Ministry of Education, Key Laboratory of Trace Elements and Endemic Diseasesof Ministry of Health, Xi＇an 710061, Shannxi, China Department of Oncosurgery, The First Affiliated Hospital of the Medical College of Xi＇an Jiaotong University, Xi＇an 710061, Shannxi, China |
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| Copyright | 2016 The Editorial Board of Biomedical and Environmental Sciences Copyright © 2016 The Editorial Board of Biomedical and Environmental Sciences. Published by China CDC. All rights reserved. Copyright © Wanfang Data Co. Ltd. All Rights Reserved. |
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| DocumentTitleAlternate | Exploring Genome-wide DNA Methylation Profiles Altered in Kashin-Beck Disease Using Infinium Human Methylation 450 Bead Chips |
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| Notes | To understand how differentially methylated genes（DMGs）might affect the pathogenesis of Kashin-Beck disease（KBD）.Genome-wide methylation profiling of whole blood from 12matched KBD and controls pairs was performed using a high-resolution Infinium 450 K methylation array.In total,97 CpG sites were differentially 11-2816/Q SourceType-Other Sources-1 content type line 63 ObjectType-Correspondence-1 |
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| Publisher | Elsevier B.V Department of Pediatrics, The First Affiliated Hospital of the Medical Col ege of Xi’an Jiaotong University, Xi’an 710061, Shannxi, China%Department of 0ncosurgery, The First Affiliated Hospital of the Medical College of Xi’an Jiaotong University, Xi’an 710061, Shannxi, China |
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| References | De la Rica, Urquiza, Gómez-Cabrero (bib5) 2013; 41 Shi, Lu, Liu (bib7) 2011; 63 Suete, Moreno, Chassear (bib1) 2001; 25 Dedeurwaerder, Defrance, Calonne (bib6) 2011; 3 Sakkas, Platsoucas (bib8) 2007; 56 Bernstein, Meissner, Lander (bib4) 2007; 128 Stark, Straub, Blazicková (bib9) 2010; 1193 Jiang, Li, Li (bib10) 2015; 33 Zhang, Guo, Wang (bib2) 2011; 6 Guo, Ma, Zhang (bib3) 2014; 22 |
| References_xml | – volume: 25 start-page: 180 year: 2001 end-page: 187 ident: bib1 article-title: Epidemiological support for a multifactorial aetiology of Kashin-Beck disease in Tibet publication-title: Int Orthop – volume: 6 start-page: e22983 year: 2011 ident: bib2 article-title: Genome-wide gene expression analysis suggests an important role of hypoxia in the pathogenesis of endemic osteochondropathy Kashin-Beck Disease publication-title: PLos One – volume: 1193 start-page: 10 year: 2010 end-page: 14 ident: bib9 article-title: Genetics in neuroendocrine immunology: implications for rheumatoid arthritis and osteoarthritis publication-title: Ann NY Acad Sci – volume: 33 start-page: 115 year: 2015 end-page: 121 ident: bib10 article-title: Diabetes mellitus risk factors in rheumatoid arthritis: a systematic review and meta-analysis publication-title: Clin Exp Rheumatol – volume: 41 start-page: 6 year: 2013 end-page: 16 ident: bib5 article-title: Identification of novel markers in rheumatoid arthritis through integrated analysis of DNA methylation and microRNA expression publication-title: J Autoimmun – volume: 63 start-page: 3408 year: 2011 end-page: 3416 ident: bib7 article-title: Genetic variants in the HLA–DRB1 gene are associated with Kashin-Beck disease in the Tibetan population publication-title: Arthritis Rheum – volume: 56 start-page: 409 year: 2007 end-page: 424 ident: bib8 article-title: The role of T cells in the pathogenesis of osteoarthritis publication-title: Arthritis Rheum – volume: 3 start-page: 771 year: 2011 end-page: 784 ident: bib6 article-title: Evaluation of the Infinium Methylation 450K technology publication-title: Epigenomics – volume: 22 start-page: 1774 year: 2014 end-page: 1783 ident: bib3 article-title: Recent advances in the research of an endemic osteochondropathy in China: Kashin-Beck disease publication-title: Osteoarthritis Cartilage – volume: 128 start-page: 669 year: 2007 end-page: 681 ident: bib4 article-title: The mammalian epigenome publication-title: Cell |
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| SubjectTerms | Adult Case-Control Studies Cluster Analysis CpG Islands DNA Methylation Female Genetic Variation Genome-Wide Association Study Humans Kashin-Beck Disease - genetics Middle Aged Oligonucleotide Array Sequence Analysis |
| Title | Exploring Genome-wide DNA Methylation Profiles Altered in Kashin-Beck Disease Using Infinium Human Methylation 450 Bead Chips |
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