scholarly journals Comprehensive analysis of gene expression and DNA methylation datasets identify valuable biomarkers for rheumatoid arthritis progression

Oncotarget ◽  
2017 ◽  
Vol 9 (3) ◽  
pp. 2977-2983 ◽  
Author(s):  
Gang Fang ◽  
Qing Huai Zhang ◽  
Qianqian Tang ◽  
Zuling Jiang ◽  
Shasha Xing ◽  
...  
Keyword(s):  
Rheumatoid Arthritis ◽  
Gene Expression ◽  
Dna Methylation ◽  
Comprehensive Analysis

scholarly journals Comprehensive analysis of DNA methylation and gene expression in orally tolerized T cells

PLoS ONE ◽  
2020 ◽  
Vol 15 (2) ◽  
pp. e0229042
Author(s):  
Ayano Toyoda ◽  
Toshinori Kozaki ◽  
Kazuo Ishii ◽  
Momoka Taniishi ◽  
Makoto Hattori ◽  
...  
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
T Cells ◽  
Comprehensive Analysis

scholarly journals Novel Insights Into Rheumatoid Arthritis Through Characterization of Concordant Changes in DNA Methylation and Gene Expression in Synovial Biopsies of Patients With Differing Numbers of Swollen Joints

2021 ◽  
Vol 12 ◽  
Author(s):  
Andrew Y. F. Li Yim ◽  
Enrico Ferrero ◽  
Klio Maratou ◽  
Huw D. Lewis ◽  
George Royal ◽  
...  
Keyword(s):  
Rheumatoid Arthritis ◽  
Gene Expression ◽  
Dna Methylation ◽  
Synovial Tissue ◽  
Disease Spread ◽  
Genome Wide ◽  
Bisulphite Sequencing ◽  
Auto Antibody ◽  
Disease Specific

In this study, we sought to characterize synovial tissue obtained from individuals with arthralgia and disease-specific auto-antibodies and patients with established rheumatoid arthritis (RA), by applying an integrative multi-omics approach where we investigated differences at the level of DNA methylation and gene expression in relation to disease pathogenesis. We performed concurrent whole-genome bisulphite sequencing and RNA-Sequencing on synovial tissue obtained from the knee and ankle from 4 auto-antibody positive arthralgia patients and thirteen RA patients. Through multi-omics factor analysis we observed that the latent factor explaining the variance in gene expression and DNA methylation was associated with Swollen Joint Count 66 (SJC66), with patients with SJC66 of 9 or more displaying separation from the rest. Interrogating these observed differences revealed activation of the immune response as well as dysregulation of cell adhesion pathways at the level of both DNA methylation and gene expression. We observed differences for 59 genes in particular at the level of both transcript expression and DNA methylation. Our results highlight the utility of genome-wide multi-omics profiling of synovial samples for improved understanding of changes associated with disease spread in arthralgia and RA patients, and point to novel candidate targets for the treatment of the disease.

Comprehensive analysis of gene expression and DNA methylation for human nasopharyngeal carcinoma

2019 ◽  
Vol 276 (9) ◽  
pp. 2565-2576
Author(s):  
Hu Li ◽  
Fu-Ling Wang ◽  
Liang-peng Shan ◽  
Jun An ◽  
Ming-lei Liu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Nasopharyngeal Carcinoma ◽  
Comprehensive Analysis ◽  
Human Nasopharyngeal Carcinoma

scholarly journals Comprehensive analysis of DNA methylation and gene expression of rat liver in a 2-stage hepatocarcinogenesis model

2014 ◽  
Vol 39 (6) ◽  
pp. 837-848 ◽  
Author(s):  
Ko Omura ◽  
Takeki Uehara ◽  
Yuji Morikawa ◽  
Hitomi Hayashi ◽  
Kunitoshi Mitsumori ◽  
...  
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Rat Liver ◽  
Comprehensive Analysis
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