Temporal Identification of Dysregulated Genes and Pathways in Clear Cell Renal Cell Carcinoma Based on Systematic Tracking of Disrupted Modules
Joint Authors
Wang, Shao-Mei
Sun, Ze-Qiang
Li, Hong-Yun
Wang, Jin
Liu, Qing-Yong
Source
Computational and Mathematical Methods in Medicine
Issue
Vol. 2015, Issue 2015 (31 Dec. 2015), pp.1-11, 11 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2015-10-12
Country of Publication
Egypt
No. of Pages
11
Main Subjects
Abstract EN
Objective.
The objective of this work is to identify dysregulated genes and pathways of ccRCC temporally according to systematic tracking of the dysregulated modules of reweighted Protein-Protein Interaction (PPI) networks.
Methods.
Firstly, normal and ccRCC PPI network were inferred and reweighted based on Pearson correlation coefficient (PCC).
Then, we identified altered modules using maximum weight bipartite matching and ranked them in nonincreasing order.
Finally, gene compositions of altered modules were analyzed, and pathways enrichment analyses of genes in altered modules were carried out based on Expression Analysis Systematic Explored (EASE) test.
Results.
We obtained 136, 576, 693, and 531 disrupted modules of ccRCC stages I, II, III, and IV, respectively.
Gene composition analyses of altered modules revealed that there were 56 common genes (such as MAPK1, CCNA2, and GSTM3) existing in the four stages.
Besides pathway enrichment analysis identified 5 common pathways (glutathione metabolism, cell cycle, alanine, aspartate, and glutamate metabolism, arginine and proline metabolism, and metabolism of xenobiotics by cytochrome P450) across stages I, II, III, and IV.
Conclusions.
We successfully identified dysregulated genes and pathways of ccRCC in different stages, and these might be potential biological markers and processes for treatment and etiology mechanism in ccRCC.
American Psychological Association (APA)
Wang, Shao-Mei& Sun, Ze-Qiang& Li, Hong-Yun& Wang, Jin& Liu, Qing-Yong. 2015. Temporal Identification of Dysregulated Genes and Pathways in Clear Cell Renal Cell Carcinoma Based on Systematic Tracking of Disrupted Modules. Computational and Mathematical Methods in Medicine،Vol. 2015, no. 2015, pp.1-11.
https://search.emarefa.net/detail/BIM-1057863
Modern Language Association (MLA)
Wang, Shao-Mei…[et al.]. Temporal Identification of Dysregulated Genes and Pathways in Clear Cell Renal Cell Carcinoma Based on Systematic Tracking of Disrupted Modules. Computational and Mathematical Methods in Medicine No. 2015 (2015), pp.1-11.
https://search.emarefa.net/detail/BIM-1057863
American Medical Association (AMA)
Wang, Shao-Mei& Sun, Ze-Qiang& Li, Hong-Yun& Wang, Jin& Liu, Qing-Yong. Temporal Identification of Dysregulated Genes and Pathways in Clear Cell Renal Cell Carcinoma Based on Systematic Tracking of Disrupted Modules. Computational and Mathematical Methods in Medicine. 2015. Vol. 2015, no. 2015, pp.1-11.
https://search.emarefa.net/detail/BIM-1057863
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1057863