NDLI: Network-based method for detecting dysregulated pathways in glioblastoma cancer

Content Provider	IET Digital Library
Author	Wu, Hao Dong, Jihua Wei, Jicheng
Abstract	The knowledge on the biological molecular mechanisms underlying cancer is important for the precise diagnosis and treatment of cancer patients. Detecting dysregulated pathways in cancer can provide insights into the mechanism of cancer and help to detect novel drug targets. Based on the wide existing mutual exclusivity among mutated genes and the interrelationship between gene mutations and expression changes, this study presents a network-based method to detect the dysregulated pathways from gene mutations and expression data of the glioblastoma cancer. First, the authors construct a gene network based on mutual exclusivity between each pair of genes and the interaction between gene mutations and expression changes. Then they detect all complete subgraphs using CFinder clustering algorithm in the constructed gene network. Next, the two gene sets whose overlapping scores are above a specific threshold are merged. Finally, they obtain two dysregulated pathways in which there are glioblastoma-related multiple genes which are closely related to the two subtypes of glioblastoma. The results show that one dysregulated pathway revolving around epidermal growth factor receptor is likely to be associated with the primary subtype of glioblastoma, and the other dysregulated pathway revolving around TP53 is likely to be associated with the secondary subtype of glioblastoma.
Starting Page	39
Ending Page	44
Page Count	6
ISSN	17518849
Volume Number	12
e-ISSN	17518857
Issue Number	Issue 1, Feb (2018)
Alternate Webpage(s)	https://digital-library.theiet.org/content/journals/iet-syb/12/1
Alternate Webpage(s)	https://digital-library.theiet.org/content/journals/10.1049/iet-syb.2017.0033
Journal	IET Systems Biology
Publisher	The Institution of Engineering and Technology
Publisher Date	2017-11-08
Access Restriction	Open
Rights License	Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/)
Subject Keyword	Biological Molecular Mechanisms Biomolecular Interactions Biomolecular Structure, Configuration, Conformation, And Active Sites Biophysics of Neurophysiological Processes Brain Cancer Cancer Patient Treatment CFinder Clustering Algorithm Charge Transfer Complexes Constructed Gene Network Drug Targets Drugs Dysregulated Pathways Detection Epidermal Growth Factor Receptor Expression Changes Expression Data Gene Mutations Gene Sets Genetic Algorithm Genetics Genomic Technique Genomics Glioblastoma Cancer Glioblastoma-related Multiple Genes Macromolecular Configuration (bonds, Dimensions) Macromolecular Constitution (Chain And Sequence) Molecular Biophysics Molecular Configurations Mutated Genes Mutual Exclusivity Network-based Method Neurophysiology Overlapping Scores Patient Care And Treatment Patient Diagnosis Patient Diagnostic Method And Instrumentation Physical Chemistry of Biomolecular Solutions And Condensed State Precise Diagnosis Proteins Secondary Subtype Skin TP53 Tumours
Content Type	Text
Resource Type	Article
Subject	Cell Biology Genetics Molecular Biology Modeling and Simulation Biotechnology

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