A Pathway Analysis Based on Genome-Wide DNA Methylation of Chinese Patients with Graves’ Orbitopathy
Joint Authors
Hua, Lin
Xin, Zhong
Yang, Yi-Lin
Shi, Ting-Ting
Liu, Wei
Tuo, Xiu
Li, Yu
Cao, Xi
Yang, Fang-Yuan
Source
Issue
Vol. 2019, Issue 2019 (31 Dec. 2019), pp.1-10, 10 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2019-01-13
Country of Publication
Egypt
No. of Pages
10
Main Subjects
Abstract EN
Background.
The pathogenesis Graves’ Orbitopathy (GO) is not yet fully understood.
Here, we conducted a pathway analysis based on genome-wide DNA methylation data of Chinese GO patients to explore GO-related pathways and potential feature genes.
Methods.
Six GO patients and 6 age-matched control individuals were recruited, and a genome-scale screen of DNA methylation was measured using their peripheral blood sample.
After extracting the differentially methylated regions (DMRs), we classified DMRs into three clusters with respect to median absolute deviation (MAD) for GO and control group, respectively.
Then the extract tests were performed to identify significant pathways by comparing the counts of genes in each cluster between GO and control group in a pathway.
For each significant pathway, we calculated the Methylation-based Inference of Regulatory Activity (MIRA) score to infer the regulatory activity of genes involved in the pathway.
Furthermore, we took the significant pathways as the subsets and applied Random forests (RF) method to extract GO-related feature genes.
Results.
We identified four potential significant pathways associated with the occurrence and development of GO disease.
There were Toxoplasmosis, Axon guidance, Focal adhesion, and Proteoglycans in cancer (p<0.001 or p=0.007).
The identified genes involved in the significant pathways, such as LDLR (p=0.019), CDK5 (p=0.036), and PIK3CB (p=0.020), were found to be correlated with GO phenotype.
Conclusion.
Our study suggested pathway analyses can help understand the potential relationships between the DNA methylation level of some certain genes and their regulation in Chinese GO patients.
American Psychological Association (APA)
Xin, Zhong& Hua, Lin& Yang, Yi-Lin& Shi, Ting-Ting& Liu, Wei& Tuo, Xiu…[et al.]. 2019. A Pathway Analysis Based on Genome-Wide DNA Methylation of Chinese Patients with Graves’ Orbitopathy. BioMed Research International،Vol. 2019, no. 2019, pp.1-10.
https://search.emarefa.net/detail/BIM-1128633
Modern Language Association (MLA)
Xin, Zhong…[et al.]. A Pathway Analysis Based on Genome-Wide DNA Methylation of Chinese Patients with Graves’ Orbitopathy. BioMed Research International No. 2019 (2019), pp.1-10.
https://search.emarefa.net/detail/BIM-1128633
American Medical Association (AMA)
Xin, Zhong& Hua, Lin& Yang, Yi-Lin& Shi, Ting-Ting& Liu, Wei& Tuo, Xiu…[et al.]. A Pathway Analysis Based on Genome-Wide DNA Methylation of Chinese Patients with Graves’ Orbitopathy. BioMed Research International. 2019. Vol. 2019, no. 2019, pp.1-10.
https://search.emarefa.net/detail/BIM-1128633
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1128633