We explore the underlying molecular mechanisms and to identify key molecules in Huntington's disease by utilizing bioinformatics methods. The gene expression profile of GSE3621 was extracted from the gene expression omnibus. Differentially expressed genes between the R6/1 transgenic mouse model of Huntington's disease and controls at different time points were screened by limma package in R. Kyoto encyclopedia of genes and genomes database. It was used to analyze the pathways of differentially expressed genes. A searching tool of the protein-protein interaction network was constructed and visualized by Cytoscape. Molecular complex detection was utilized to performed module analysis. There were 513, 483, and 528 differentially expressed genes identified at weeks 18, 22 and 27, respectively, when compared with the control samples. Also, 24 significantly enriched R. Kyoto encyclopedia of genes and genomes database pathways were identified (9 in week 18, 6 in week 22, 9 in week 27), and 31 significant modules were identified from the protein-protein interaction network (13 in week 18, 8 in week 22, 10 in week 27). Hoxd8, Atf3, and Egr2 were confirmed as transcription factors related to Huntington’s disease. There are widespread gene expression changes in Huntington's disease at different time points. Some hub genes, such as Usp18, Oasl2, and Rtp4, may play important roles in the pathogenesis of Huntington’s disease.
Cite this article
Volume | Year
Open Access Original Research
Bioinformatics analysis of the molecular mechanism underlying Huntington’s disease
Zhimin Wang1, Xiaoyu Dong1, Shuyan Cong1,*
1 Department of Neurology, Shengjing Hospital of China Medical University, Shenyang, Liaoning 110004, P. R. China
*Correspondence: firstname.lastname@example.org (Shuyan Cong)
J. Integr. Neurosci. 2019, 18(4), 369–376; https://doi.org/10.31083/j.jin.2019.04.1176
Submitted: 4 September 2019 | Accepted: 20 October 2019 | Published: 30 December 2019
Copyright: © 2019 Wang et al. Published by IMR Press.
This is an open access article under the CC BY 4.0 license
differentially expressed gene