Open Access

Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism

  • Authors:
    • Hao Wang
    • Chen Wang
    • Lei Zhang
    • Yinghua Lu
    • Qianglin Duan
    • Zhu Gong
    • Aibin Liang
    • Haoming Song
    • Lemin Wang
  • View Affiliations

  • Published online on: November 26, 2014     https://doi.org/10.3892/mmr.2014.3006
  • Pages: 2527-2533
  • Copyright: © Wang et al. This is an open access article distributed under the terms of Creative Commons Attribution License [CC BY_NC 3.0].

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Abstract

The aim of the present study was to explore the function and interaction of differentially expressed genes (DEGs) in pulmonary embolism (PE). The gene expression profile GSE13535, was downloaded from the Gene Expression Omnibus database. The DEGs 2 and 18 h post‑PE initiation were identified using the affy package in R software. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways of the DEGs were analyzed using Database for Annotation Visualization and Integrated Discovery (DAVID) online analytical tools. In addition, protein‑protein interaction (PPI) networks of the DEGs were constructed using the Search Tool for the Retrieval of Interacting Genes/Proteins. The PPI network at 18 h was modularized using Clusterone, and a functional enrichment analysis of the DEGs in the top three modules was performed with DAVID. Overall, 80 and 346 DEGs were identified 2 and 18 h after PE initiation, respectively. The KEGG pathways, including chemokine signaling and toll‑like receptor signaling, were shown to be significantly enriched. The five highest degree nodes in the PPI networks at 2 or 18 h were screened. The module analysis of the PPI network at 18 h revealed 11 hub nodes. A Gene Ontology terms analysis demonstrated that the DEGs in the top three modules were associated with the inflammatory, defense and immune responses. The results of the present study suggest that the DEGs identified, including chemokine‑related genes TFPI2 and TNF, may be potential target genes for the treatment of PE. The chemokine signaling pathway, inflammatory response and immune response were explored, and it may be suggested that these pathways have important roles in PE.

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April-2015
Volume 11 Issue 4

Print ISSN: 1791-2997
Online ISSN:1791-3004

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Copy and paste a formatted citation
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Spandidos Publications style
Wang H, Wang C, Zhang L, Lu Y, Duan Q, Gong Z, Liang A, Song H and Wang L: Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism. Mol Med Rep 11: 2527-2533, 2015.
APA
Wang, H., Wang, C., Zhang, L., Lu, Y., Duan, Q., Gong, Z. ... Wang, L. (2015). Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism. Molecular Medicine Reports, 11, 2527-2533. https://doi.org/10.3892/mmr.2014.3006
MLA
Wang, H., Wang, C., Zhang, L., Lu, Y., Duan, Q., Gong, Z., Liang, A., Song, H., Wang, L."Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism". Molecular Medicine Reports 11.4 (2015): 2527-2533.
Chicago
Wang, H., Wang, C., Zhang, L., Lu, Y., Duan, Q., Gong, Z., Liang, A., Song, H., Wang, L."Analysis of the protein-protein interaction networks of differentially expressed genes in pulmonary embolism". Molecular Medicine Reports 11, no. 4 (2015): 2527-2533. https://doi.org/10.3892/mmr.2014.3006