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Li B, Liu J, Zhang YY, Wang PQ, Yu YN, Kang RX, Wu HL, Zhang XX, Wang Z, Wang YY. Quantitative Identification of Compound-Dependent On-Modules and Differential Allosteric Modules From Homologous Ischemic Networks. CPT-PHARMACOMETRICS & SYSTEMS PHARMACOLOGY 2016; 5:575-584. [PMID: 27758049 PMCID: PMC5080653 DOI: 10.1002/psp4.12127] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/26/2016] [Revised: 07/28/2016] [Accepted: 08/22/2016] [Indexed: 12/13/2022]
Abstract
Module‐based methods have made much progress in deconstructing biological networks. However, it is a great challenge to quantitatively compare the topological structural variations of modules (allosteric modules [AMs]) under different situations. A total of 23, 42, and 15 coexpression modules were identified in baicalin (BA), jasminoidin (JA), and ursodeoxycholic acid (UA) in a global anti‐ischemic mice network, respectively. Then, we integrated the methods of module‐based consensus ratio (MCR) and modified Zsummary module statistic to validate 12 BA, 22 JA, and 8 UA on‐modules based on comparing with vehicle. The MCRs for pairwise comparisons were 1.55% (BA vs. JA), 1.45% (BA vs. UA), and 1.27% (JA vs. UA), respectively. Five conserved allosteric modules (CAMs) and 17 unique allosteric modules (UAMs) were identified among these groups. In conclusion, module‐centric analysis may provide us a unique approach to understand multiple pharmacological mechanisms associated with differential phenotypes in the era of modular pharmacology.
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Affiliation(s)
- B Li
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China.,Institute of Information on Traditional Chinese Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - J Liu
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - Y Y Zhang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - P Q Wang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - Y N Yu
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - R X Kang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - H L Wu
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - X X Zhang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
| | - Z Wang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China.
| | - Y Y Wang
- Institute of Basic Research in Clinical Medicine, China Academy of Chinese Medical Sciences, Beijing, China
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Zhong J, Chen X, Wu N, Shen C, Cui H, Du W, Zhang Z, Feng M, Liu J, Lin S, Zhang L, Wang J, Chen X, Duan S. Catechol-O-methyltransferase promoter hypomethylation is associated with the risk of coronary heart disease. Exp Ther Med 2016; 12:3445-3449. [PMID: 27882177 DOI: 10.3892/etm.2016.3757] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2015] [Accepted: 05/24/2016] [Indexed: 02/05/2023] Open
Abstract
Catechol-O-methyltransferase (COMT) gene variation is known to be associated with the risk of acute coronary events. The purpose of the present study was to investigate the contribution of COMT promoter methylation towards the risk of coronary heart disease (CHD). COMT methylation was evaluated in 48 CHD cases and 48 well-matched non-CHD controls using bisulfite pyrosequencing technology. The results demonstrated that CHD cases had a significantly lower level of methylation at COMT CpG3 sites compared with the controls (33.77±5.71 vs. 36.42±5.00%; P=0.018). Further analysis, according to gender, showed that CpG3 methylation was associated with CHD in males (P=0.038) but not in females (P=0.253), suggesting that there is a gender disparity in the association between COMT methylation and CHD. In conclusion, it was determined that COMT CpG3 hypomethylation is associated with an increased risk of CHD in males.
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Affiliation(s)
- Jinyan Zhong
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Xiaoying Chen
- Medical Genetics Center, School of Medicine, Ningbo University, Ningbo, Zhejiang 315211, P.R. China
| | - Nan Wu
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Caijie Shen
- Department of Cardiology, Ningbo Seventh Hospital, Ningbo, Zhejiang 315202, P.R. China
| | - Hanbin Cui
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Weiping Du
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Zhaoxia Zhang
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Mingjun Feng
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Junsong Liu
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Shaoyi Lin
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Lulu Zhang
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Jian Wang
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Xiaomin Chen
- Department of Cardiology, Ningbo First Hospital, Ningbo University, Ningbo, Zhejiang 315010, P.R. China
| | - Shiwei Duan
- Medical Genetics Center, School of Medicine, Ningbo University, Ningbo, Zhejiang 315211, P.R. China
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