Open Access

Identification of key pathways and genes in colorectal cancer to predict the prognosis based on mRNA interaction network

  • Authors:
    • Hengzhou Zhu
    • Yi Ji
    • Wenting Li
    • Mianhua Wu
  • View Affiliations

  • Published online on: August 1, 2019     https://doi.org/10.3892/ol.2019.10698
  • Pages: 3778-3786
  • Copyright: © Zhu et al. This is an open access article distributed under the terms of Creative Commons Attribution License.

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Abstract

The aim of the present study was to identify key genes in colorectal cancer (CRC) that could be used to reliably diagnose this disease and to explore the potential underlying mechanisms in silico. The gene expression profiles of primary human cancer datasets GSE21510 and GSE32323 were downloaded from the Gene Expression Omnibus database. The limma R software package was used to identify differentially expressed (DE) genes. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed on DE genes using the Database for Annotation, Visualization and Integrated Discovery. The Search Tool for the Retrieval of Interacting Genes/Proteins database was used to construct a protein‑protein interaction (PPI) network of the DE genes. Survival rate was analyzed and visualized using The Cancer Genome Atlas (TCGA). A total of 1,126 genes were significantly DE in the present study. All DE genes were enriched in KEGG pathways including ‘cell cycle’, ‘mineral absorption’, ‘pancreatic secretion’, ‘pathways in cancer’, ‘metabolic pathways’, ‘aldosterone‑regulated sodium reabsorption’ and ‘Wnt signaling pathway’. A total of 5 hub genes enriched in cell cycle and tumor‑associated pathways, including E2F2, SKP2, MYC, CDKN1A and CDKN2B, were significantly DE and validated between tumor and normal tissues. CDKN1A and CDKN2B were identified within the PPI network using the Molecular Complex Detection algorithm. Survival and content distribution analyses of 362 clinical samples from TCGA revealed that CDKN1A effectively predicted the prognosis of patients. The present study identified key genes and potential signaling pathways involved in CRC. These findings may provide new insights for survival assessment during the clinical diagnosis of CRC.

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October 2019
Volume 18 Issue 4

Print ISSN: 1792-1074
Online ISSN:1792-1082

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Copy and paste a formatted citation
APA
Zhu, H., Ji, Y., Li, W., & Wu, M. (2019). Identification of key pathways and genes in colorectal cancer to predict the prognosis based on mRNA interaction network. Oncology Letters, 18, 3778-3786. https://doi.org/10.3892/ol.2019.10698
MLA
Zhu, H., Ji, Y., Li, W., Wu, M."Identification of key pathways and genes in colorectal cancer to predict the prognosis based on mRNA interaction network". Oncology Letters 18.4 (2019): 3778-3786.
Chicago
Zhu, H., Ji, Y., Li, W., Wu, M."Identification of key pathways and genes in colorectal cancer to predict the prognosis based on mRNA interaction network". Oncology Letters 18, no. 4 (2019): 3778-3786. https://doi.org/10.3892/ol.2019.10698