Bioinformatics Analysis of Key Genes and Pathways in Colorectal Cancer

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
Yuewen QiBingqing Li

Abstract

Colorectal cancer (CRC) is the third most prevalent cancer in the world. Although great progress has been made, the specific molecular mechanism remains unclear. This study aimed to explore the differentially expressed genes (DEGs) and underlying mechanisms of CRC using bioinformatics analysis. In this study, we identified a total of 1353 DEGs in the database of GSE113513, including 715 up- and 638 downregulated genes. Gene ontology analysis results showed that upregulated DEGs were significantly enriched in cell division, cell proliferation, and DNA replication. The downregulated DEGs were enriched in immune response, relation of cell growth and inflammatory response. The Kyoto Encyclopedia of Genes and Genomes pathway analysis showed that upregulated DEGs were enriched in cell cycle and p53 signaling pathway, whereas the downregulated DEGs were enriched in drug metabolism, metabolism of xenobiotics by cytochrome P450, and nitrogen metabolism. A total of 124 up-key genes and 35 down-key genes were identified from the protein-protein interaction networks. Furthermore, we identified five up-modules (up-A, up-B, up-C, up-D, and up-E) and three down-modules (d-A, d-B, and d-C) by module analysis. The module up-A was enriched in si...Continue Reading

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Datasets Mentioned

BETA
GEO113513
GSE113513
GPL15207

Software Mentioned

affy package
Database for Annotation , Visualization and Integrated Discove...
DAVID
LIMMA
STRING
R
Cytoscape
Search Tool for the
Molecular Complex Detection ( MCODE

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