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Candidate genes and pathogenesis investigation for sepsis-related acute respiratory distress syndrome based on gene expression profile.

Wang M, Yan J, He X, Zhong Q, Zhan C, Li S - Biol. Res. (2016)

Bottom Line: The up- and down-regulated DEGs were mainly involved in functions like mitotic cell cycle and pathway like cell cycle.A total of seven transcription factors including forkhead box protein M1 (FOXM1) and 30 target genes were revealed in the transcription factor-target gene regulation network.Genes including CCNB1, CCNB2 and TOP2A, as well as transcription factors like FOXM1 might be used as the novel gene therapy targets for sepsis related ARDS.

View Article: PubMed Central - PubMed

Affiliation: Department of Emergency and Intensive Care Unit, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, 1095 Jiefang Avenue, Wuhan, 430030, China.

ABSTRACT

Background: Acute respiratory distress syndrome (ARDS) is a potentially devastating form of acute inflammatory lung injury as well as a major cause of acute respiratory failure. Although researchers have made significant progresses in elucidating the pathophysiology of this complex syndrome over the years, the absence of a universal detail disease mechanism up until now has led to a series of practical problems for a definitive treatment. This study aimed to predict some genes or pathways associated with sepsis-related ARDS based on a public microarray dataset and to further explore the molecular mechanism of ARDS.

Results: A total of 122 up-regulated DEGs and 91 down-regulated differentially expressed genes (DEGs) were obtained. The up- and down-regulated DEGs were mainly involved in functions like mitotic cell cycle and pathway like cell cycle. Protein-protein interaction network of ARDS analysis revealed 20 hub genes including cyclin B1 (CCNB1), cyclin B2 (CCNB2) and topoisomerase II alpha (TOP2A). A total of seven transcription factors including forkhead box protein M1 (FOXM1) and 30 target genes were revealed in the transcription factor-target gene regulation network. Furthermore, co-cited genes including CCNB2-CCNB1 were revealed in literature mining for the relations ARDS related genes.

Conclusions: Pathways like mitotic cell cycle were closed related with the development of ARDS. Genes including CCNB1, CCNB2 and TOP2A, as well as transcription factors like FOXM1 might be used as the novel gene therapy targets for sepsis related ARDS.

No MeSH data available.


Related in: MedlinePlus

Protein-protein interaction network investigation. Red represents the up-regulated gene; Green represents the down-regulated gene
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Fig2: Protein-protein interaction network investigation. Red represents the up-regulated gene; Green represents the down-regulated gene

Mentions: With combined score >0.4, a total of 132 nodes with 290 protein interaction pairs were revealed. The PPI network was constructed based on the protein interaction pairs (Fig. 2). Top 20 genes (hub genes) with higher combined score that respectively evaluated by subgraph centrality, betweenness centrality and degree centrality were listed in Table 3. The results showed that cyclin B2 (CCNB2) had the highest combined score based on the subgraph centrality evaluation. Meanwhile, the topoisomerase II alpha (TOP2A) had the highest combined score in both betweenness and degree centrality evaluations. Furthermore, a sub-network module was obtained from the PPI network (Fig. 3). The result showed that there were 24 genes in the sub-network module, all of which were up-regulated. Interestingly, among the 24 genes, 20 could be found in Table 3.Fig. 2


Candidate genes and pathogenesis investigation for sepsis-related acute respiratory distress syndrome based on gene expression profile.

Wang M, Yan J, He X, Zhong Q, Zhan C, Li S - Biol. Res. (2016)

Protein-protein interaction network investigation. Red represents the up-regulated gene; Green represents the down-regulated gene
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4835843&req=5

Fig2: Protein-protein interaction network investigation. Red represents the up-regulated gene; Green represents the down-regulated gene
Mentions: With combined score >0.4, a total of 132 nodes with 290 protein interaction pairs were revealed. The PPI network was constructed based on the protein interaction pairs (Fig. 2). Top 20 genes (hub genes) with higher combined score that respectively evaluated by subgraph centrality, betweenness centrality and degree centrality were listed in Table 3. The results showed that cyclin B2 (CCNB2) had the highest combined score based on the subgraph centrality evaluation. Meanwhile, the topoisomerase II alpha (TOP2A) had the highest combined score in both betweenness and degree centrality evaluations. Furthermore, a sub-network module was obtained from the PPI network (Fig. 3). The result showed that there were 24 genes in the sub-network module, all of which were up-regulated. Interestingly, among the 24 genes, 20 could be found in Table 3.Fig. 2

Bottom Line: The up- and down-regulated DEGs were mainly involved in functions like mitotic cell cycle and pathway like cell cycle.A total of seven transcription factors including forkhead box protein M1 (FOXM1) and 30 target genes were revealed in the transcription factor-target gene regulation network.Genes including CCNB1, CCNB2 and TOP2A, as well as transcription factors like FOXM1 might be used as the novel gene therapy targets for sepsis related ARDS.

View Article: PubMed Central - PubMed

Affiliation: Department of Emergency and Intensive Care Unit, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, 1095 Jiefang Avenue, Wuhan, 430030, China.

ABSTRACT

Background: Acute respiratory distress syndrome (ARDS) is a potentially devastating form of acute inflammatory lung injury as well as a major cause of acute respiratory failure. Although researchers have made significant progresses in elucidating the pathophysiology of this complex syndrome over the years, the absence of a universal detail disease mechanism up until now has led to a series of practical problems for a definitive treatment. This study aimed to predict some genes or pathways associated with sepsis-related ARDS based on a public microarray dataset and to further explore the molecular mechanism of ARDS.

Results: A total of 122 up-regulated DEGs and 91 down-regulated differentially expressed genes (DEGs) were obtained. The up- and down-regulated DEGs were mainly involved in functions like mitotic cell cycle and pathway like cell cycle. Protein-protein interaction network of ARDS analysis revealed 20 hub genes including cyclin B1 (CCNB1), cyclin B2 (CCNB2) and topoisomerase II alpha (TOP2A). A total of seven transcription factors including forkhead box protein M1 (FOXM1) and 30 target genes were revealed in the transcription factor-target gene regulation network. Furthermore, co-cited genes including CCNB2-CCNB1 were revealed in literature mining for the relations ARDS related genes.

Conclusions: Pathways like mitotic cell cycle were closed related with the development of ARDS. Genes including CCNB1, CCNB2 and TOP2A, as well as transcription factors like FOXM1 might be used as the novel gene therapy targets for sepsis related ARDS.

No MeSH data available.


Related in: MedlinePlus