Comprehensive multi-omics analysis identified core molecular processes in esophageal cancer and revealed GNGT2 as a potential prognostic marker
| Autor: | Yun Liu, Guomin Liu, Xuan Ji, Yungang Luo, Mao-Lei Sun, Wenyuan Jia, Tian-Cheng Lu, Li-Wei Duan |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
Esophageal Neoplasms
Esophageal cancer Datasets as Topic Regulatory factors Real-Time Polymerase Chain Reaction GNGT2 Growth factor receptor binding Gene interaction Epidermal growth factor Cell Line Tumor GTP-Binding Protein gamma Subunits Databases Genetic medicine Biomarkers Tumor Humans Molecular pathogenesis Gene Regulatory Networks Epidermal growth factor receptor RNA-Seq Transcription factor Gene Cell Proliferation Enrichment analysis biology Gastroenterology Computational Biology General Medicine Basic Study DNA Methylation medicine.disease Prognosis Survival Analysis Up-Regulation Gene Expression Regulation Neoplastic Cancer research biology.protein Signal transduction Gene interaction module Signal Transduction |
| Zdroj: | World Journal of Gastroenterology |
| ISSN: | 2219-2840 1007-9327 |
| Popis: | Background Esophageal cancer is one of the most poorly diagnosed and fatal cancers in the world. Although a series of studies on esophageal cancer have been reported, the molecular pathogenesis of the disease remains elusive. Aim To investigate comprehensively the molecular process of esophageal cancer. Methods Differential expression analysis was performed to identify differentially expressed genes (DEGs) in different stages of esophageal cancer from The Cancer Genome Atlas data. Exacting gene interaction modules were generated, and hub genes in the module interaction network were found. Further, through survival analysis, methylation analysis, pivot analysis, and enrichment analysis, some important molecules and related functions/pathways were identified to elucidate potential mechanisms in esophageal cancer. Results A total of 7457 DEGs and 14 gene interaction modules were identified. These module genes were significantly involved in the positive regulation of protein transport, gastric acid secretion, insulin-like growth factor receptor binding, and other biological processes as well as p53 signaling pathway, epidermal growth factor signaling pathway, and epidermal growth factor receptor signaling pathway. Transcription factors (including hypoxia inducible factor 1A) and non-coding RNAs (including colorectal differentially expressed and hsa-miR-330-3p) that significantly regulate dysfunction modules were identified. Survival analysis showed that G protein subunit gamma transducin 2 (GNGT2) was closely related to survival of esophageal cancer. DEGs with strong methylation regulation ability were identified, including SST and SH3GL2. Furthermore, the expression of GNGT2 was evaluated by quantitative real time polymerase chain reaction, and the results showed that GNGT2 expression was significantly upregulated in esophageal cancer patient samples and cell lines. Moreover, cell counting kit-8 assay revealed that GNGT2 could promote the proliferation of esophageal cancer cell lines. Conclusion This study not only revealed the potential regulatory factors involved in the development of esophageal cancer but also deepens our understanding of its underlying mechanism. |
| Databáze: | OpenAIRE |
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