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Identification of hub genes in colorectal cancer based on weighted gene co-expression network analysis and clinical data from The Cancer Genome Atlas.
Zhang, Yu; Luo, Jia; Liu, Zhe; Liu, Xudong; Ma, Ying; Zhang, Bohang; Chen, Yuxuan; Li, Xiaofeng; Feng, Zhiguo; Yang, Ningning; Feng, Dayun; Wang, Lei; Song, Xinqiang.
Afiliación
  • Zhang Y; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Luo J; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Liu Z; Department of Computer Science, City University of Hong Kong, Hong Kong 999077, China.
  • Liu X; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Ma Y; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Zhang B; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Chen Y; Department of Recovery Medicine, People's Liberation Army 990 Hospital, Xinyang 464000, Henan, China.
  • Li X; Department of Pathology, First Affiliated Hospital of Xi'an Jiaotong University, Xi'an 710061, China.
  • Feng Z; College of Science, Qiongtai Normal University, Haikou 571127, China.
  • Yang N; Tropical Biodiversity and Bioresource Utilization Laboratory, Qiongtai Normal University, Haikou 571127, China.
  • Feng D; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
  • Wang L; Department of Neurosurgery, Tangdu Hospital, Air Force Medical University, Xi'an 710038, China.
  • Song X; College of Life Sciences, Xinyang Normal University, Xinyang 464000, China.
Biosci Rep ; 41(7)2021 07 30.
Article en En | MEDLINE | ID: mdl-34308980
Colorectal cancer (CRC) is one of the most common tumors worldwide and is associated with high mortality. Here we performed bioinformatics analysis, which we validated using immunohistochemistry in order to search for hub genes that might serve as biomarkers or therapeutic targets in CRC. Based on data from The Cancer Genome Atlas (TCGA), we identified 4832 genes differentially expressed between CRC and normal samples (1562 up-regulated and 3270 down-regulated in CRC). Gene ontology (GO) analysis showed that up-regulated genes were enriched mainly in organelle fission, cell cycle regulation, and DNA replication; down-regulated genes were enriched primarily in the regulation of ion transmembrane transport and ion homeostasis. Weighted gene co-expression network analysis (WGCNA) identified eight gene modules that were associated with clinical characteristics of CRC patients, including brown and blue modules that were associated with cancer onset. Analysis of the latter two hub modules revealed the following six hub genes: adhesion G protein-coupled receptor B3 (BAI3, also known as ADGRB3), cyclin F (CCNF), cytoskeleton-associated protein 2 like (CKAP2L), diaphanous-related formin 3 (DIAPH3), oxysterol binding protein-like 3 (OSBPL3), and RERG-like protein (RERGL). Expression levels of these hub genes were associated with prognosis, based on Kaplan-Meier survival analysis of data from the Gene Expression Profiling Interactive Analysis database. Immunohistochemistry of CRC tumor tissues confirmed that OSBPL3 is up-regulated in CRC. Our findings suggest that CCNF, DIAPH3, OSBPL3, and RERGL may be useful as therapeutic targets against CRC. BAI3 and CKAP2L may be novel biomarkers of the disease.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Colorrectales / Biomarcadores de Tumor / Redes Reguladoras de Genes / Transcriptoma Tipo de estudio: Diagnostic_studies / Prognostic_studies Límite: Adult / Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Biosci Rep Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Reino Unido
Texto completo
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Neoplasias Colorrectales / Biomarcadores de Tumor / Redes Reguladoras de Genes / Transcriptoma Tipo de estudio: Diagnostic_studies / Prognostic_studies Límite: Adult / Aged / Aged80 / Female / Humans / Male / Middle aged Idioma: En Revista: Biosci Rep Año: 2021 Tipo del documento: Article País de afiliación: China Pais de publicación: Reino Unido