Gene expression profile analysis of ventilator-associated pneumonia

Xu,Xiaoli; Yuan,Bo; Liang,Quan; Huang,Huimin; Yin,Xiangyi; Sheng,Xiaoyue; Nie,Niuyan; Fang,Hongmei

doi:10.3892/mmr.2015.4389

Gene expression profile analysis of ventilator-associated pneumonia

Authors:
- Xiaoli Xu
- Bo Yuan
- Quan Liang
- Huimin Huang
- Xiangyi Yin
- Xiaoyue Sheng
- Niuyan Nie
- Hongmei Fang
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Affiliations: Department of Infection Management, Jinling Hospital, Medical School of Nanjing University, Nanjing, Jiangsu 210002, P.R. China, Department of Medical Administration, Jinling Hospital, Medical School of Nanjing University, Nanjing, Jiangsu 210002, P.R. China
Published online on: September 29, 2015 https://doi.org/10.3892/mmr.2015.4389
Pages: 7455-7462
Copyright: © Xu et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

Based on the gene expression profile of patients with ventilator-associated pneumonia (VAP) and patients not affected by the disease, the present study aimed to enhance the current understanding of VAP development using bioinformatics methods. The expression profile GSE30385 was downloaded from the Gene Expression Omnibus database. The Linear Models for Microarray Data package in R language was used to screen and identify differentially expressed genes (DEGs), which were grouped as up‑ and down‑regulated genes. The up‑ and downregulated genes were functionally enriched using the Database for Annotation, Visualization and Integrated Discovery system and then annotated according to TRANSFAC, Tumor Suppressor Gene and Tumor Associated Gene databases. Subsequently, the protein‑protein interaction (PPI) network was constructed, followed by module analysis using CFinder software. A total of 69 DEGs, including 33 up‑ and 36 downregulated genes were screened out in patients with VAP. Upregulated genes were mainly enriched in functions and pathways associated with the immune response (including the genes ELANE and LTF) and the mitogen-activated protein kinase (MAPK) signaling pathway (including MAPK14). The PPI network comprised 64 PPI pairs and 44 nodes. The top two modules were enriched in different pathways, including the MAPK signaling pathway. Genes including ELANE, LTF and MAPK14 may have important roles in the development of VAP via altering the immune response and the MAPK signaling pathway.

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