title: Network clusters analysis based on protein-protein interaction network constructed in phosgene-induced acute lung injury.
abstract: OBJECTIVE
  Acute lung injury (ALI) is characterized by impairment in gas exchange and/or lung mechanics that leads to hypoxemia with the presence of diffuse pulmonary infiltrate. Assessments of lung injury play important roles in the development of rational medical countermeasures. The purpose of this study is to investigate the molecular mechanisms of phosgene-induced lung injury.
  
  
  METHODS
  We downloaded the gene expression profile of lung tissue from mice exposed to air or phosgene from gene expression omnibus database and identified differentially expressed genes (DEGs) in ALI. Furthermore, we constructed a protein-protein interaction (PPI) network and identified network clusters.
  
  
  RESULTS
  In total, 582 DEGs were found and 4 network clusters were identified in the constructed PPI network. Gene set enrichment analysis found that DEGs were mainly involved in mitochondrion organization and biogenesis, mRNA metabolic process, negative regulation of transferase activity or catalytic activity, and coenzyme metabolic process. Pathways of spliceosome, glutathione metabolism, and cell cycle were dysregulated in phosgene-induced ALI. Besides, we identified four genes, including F3, Meis1, Pvf, and Cdc6 in network clusters, which may be used as biomarkers of phosgene-induced ALI.
  
  
  CONCLUSIONS
  Our results revealed biological processes and pathways involved in phosgene-induced ALI and may expand understandings of phosgene-induced ALI. However, further experiments are needed to confirm our findings.
authors: Department of Respiratory Medicine, First People's Hospital Affiliated to Shanghai Jiaotong University, Shanghai, 200080, China.
authors: Zhenwei
authors: Z
authors: Liu
authors: Fengying
authors: F
authors: Gao
authors: Lili
authors: L
authors: Hou
authors: Yongbing
authors: Y
authors: Qian
authors: Rui
authors: R
authors: Tian
mesh_terms: D055371:Acute Lung Injury / Q000139:chemically induced* / Q000235:genetics* / Q000378:metabolism; D000818:Animals; D002453:Cell Cycle / Q000235:genetics / Q000502:physiology; D018797:Cell Cycle Proteins / Q000235:genetics / Q000378:metabolism; D016000:Cluster Analysis; D004195:Disease Models, Animal; D053263:Gene Regulatory Networks / Q000235:genetics*; D005978:Glutathione / Q000235:genetics / Q000378:metabolism; D018398:Homeodomain Proteins / Q000235:genetics / Q000378:metabolism; D008168:Lung / Q000378:metabolism; D008297:Male; D051379:Mice; D008815:Mice, Inbred Strains; D000075064:Myeloid Ecotropic Viral Integration Site 1 Protein; D009363:Neoplasm Proteins / Q000235:genetics / Q000378:metabolism; D009687:Nuclear Proteins / Q000235:genetics / Q000378:metabolism; D010705:Phosgene / Q000009:adverse effects*; D054730:Protein Interaction Domains and Motifs / Q000235:genetics*; D015398:Signal Transduction / Q000235:genetics / Q000502:physiology; D017381:Spliceosomes / Q000235:genetics / Q000378:metabolism; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism; D059467:Transcriptome
chemical_list: C502132:CDC6 protein, mouse; D018797:Cell Cycle Proteins; D018398:Homeodomain Proteins; C000616391:MEIS1 protein, human; C000616392:Meis1 protein, mouse; D000075064:Myeloid Ecotropic Viral Integration Site 1 Protein; D009363:Neoplasm Proteins; D009687:Nuclear Proteins; C063200:PVF protein, human; D014157:Transcription Factors; D010705:Phosgene; D005978:Glutathione
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