UM  > Institute of Chinese Medical Sciences
Building molecular interaction networks from microarray data for drug target screening
Yuen S.C.2; Zhu H.2; Leung S.-W.2
AbstractPotential drug targets for the disease treatment can be identified from microarray studies on differential gene expression of patients and healthy participants. Here, we describe a method to use the information of differentially expressed (DE) genes obtained from microarray studies to build molecular interaction networks for identification of pivotal molecules as potential drug targets. The quality control and normalization of the microarray data are conducted with R packages simpleaffy and affy, respectively. The DE genes with adjusted P values less than 0.05 and log fold changes larger than 1 or less than −1 are identified by limma package to construct a molecular interaction network with InnateDB. The genes with significant connectivity are identified by the Cytoscape app jActiveModules. The interactions among the genes within a module are tested by psych package to determine their associations. The gene pairs with significant association and known protein structures according to the Protein Data Bank are selected as potential drug targets. As an example for drug target screening, we demonstrate how to identify potential drug targets from a molecular interaction network constructed with the DE genes of significant connectivity, using a microarray dataset of type 2 diabetes mellitus.
KeywordDifferentially expressed genes Drug targets Microarray R Type 2 diabetes mellitus
URLView the original
Fulltext Access
Citation statistics
Cited Times [WOS]:3   [WOS Record]     [Related Records in WOS]
Document TypeBook
CollectionInstitute of Chinese Medical Sciences
Affiliation1.University of Edinburgh
2.Universidade de Macau
First Author AffilicationUniversity of Macau
Recommended Citation
GB/T 7714
Yuen S.C.,Zhu H.,Leung S.-W.. Building molecular interaction networks from microarray data for drug target screening[M],2018.
APA Yuen S.C.,Zhu H.,&Leung S.-W..(2018).Building molecular interaction networks from microarray data for drug target screening.Methods in Molecular Biology,1762,179-197.
Files in This Item:
There are no files associated with this item.
Related Services
Recommend this item
Usage statistics
Export to Endnote
Google Scholar
Similar articles in Google Scholar
[Yuen S.C.]'s Articles
[Zhu H.]'s Articles
[Leung S.-W.]'s Articles
Baidu academic
Similar articles in Baidu academic
[Yuen S.C.]'s Articles
[Zhu H.]'s Articles
[Leung S.-W.]'s Articles
Bing Scholar
Similar articles in Bing Scholar
[Yuen S.C.]'s Articles
[Zhu H.]'s Articles
[Leung S.-W.]'s Articles
Terms of Use
No data!
Social Bookmark/Share
All comments (0)
No comment.

Items in the repository are protected by copyright, with all rights reserved, unless otherwise indicated.