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通过生物信息学分析鉴定结肠癌中的核心基因

Identification of hub genes in colon cancer via bioinformatics analysis.

作者信息

Liu Jun, Sun Gui-Li, Pan Shang-Ling, Qin Meng-Bin, Ouyang Rong, Huang Jie-An

机构信息

Department of Gastroenterology, the Second Affiliated Hospital of Guangxi Medical University, Nanning, Guangxi, P.R. China.

Department of Gastroenterology, the Fourth Affiliated Hospital of Guangxi Medical University/Liu Zhou Worker's Hospital, Liuzhou, Guangxi, P.R. China.

出版信息

J Int Med Res. 2020 Sep;48(9):300060520953234. doi: 10.1177/0300060520953234.

DOI:10.1177/0300060520953234
PMID:32961078
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7513414/
Abstract

OBJECTIVES

This study aimed to investigate hub genes and their prognostic value in colon cancer via bioinformatics analysis.

METHODS

Differentially expressed genes (DEGs) of expression profiles (GSE33113, GSE20916, and GSE37364) obtained from Gene Expression Omnibus (GEO) were identified using the GEO2R tool and Venn diagram software. Function and pathway enrichment analyses were performed, and a protein-protein interaction (PPI) network was constructed. Hub genes were verified based on The Cancer Genome Atlas (TCGA) and Human Protein Atlas (HPA) databases.

RESULTS

We identified 207 DEGs, 62 upregulated and 145 downregulated genes, enriched in Gene Ontology terms "organic anion transport," "extracellular matrix," and "receptor ligand activity", and in the Kyoto Encyclopedia of Genes and Genomes pathway "cytokine-cytokine receptor interaction." The PPI network was constructed and nine hub genes were selected by survival analysis and expression validation. We verified these genes in the TCGA database and selected three potential predictors (, , and ) that met the independent predictive criteria. and were upregulated in patients with a high cancer risk, whereas was downregulated. The immunostaining results from HPA supported these findings.

CONCLUSION

This study indicates that these hub genes may be promising prognostic indicators or therapeutic targets for colon cancer.

摘要

目的

本研究旨在通过生物信息学分析探究结肠癌中的枢纽基因及其预后价值。

方法

使用GEO2R工具和维恩图软件鉴定从基因表达综合数据库（GEO）获得的表达谱（GSE33113、GSE20916和GSE37364）中的差异表达基因（DEG）。进行功能和通路富集分析，并构建蛋白质-蛋白质相互作用（PPI）网络。基于癌症基因组图谱（TCGA）和人类蛋白质图谱（HPA）数据库验证枢纽基因。

结果

我们鉴定出207个DEG，其中62个上调基因和145个下调基因，这些基因富集于基因本体论术语“有机阴离子转运”“细胞外基质”和“受体配体活性”，以及京都基因与基因组百科全书通路“细胞因子-细胞因子受体相互作用”。构建了PPI网络，并通过生存分析和表达验证选择了9个枢纽基因。我们在TCGA数据库中验证了这些基因，并选择了3个符合独立预测标准的潜在预测因子（、和）。在癌症风险高的患者中，和上调，而下调。HPA的免疫染色结果支持了这些发现。

结论

本研究表明，这些枢纽基因可能是有前景的结肠癌预后指标或治疗靶点。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/770f44d05f83/10.1177_0300060520953234-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/cfa7201c030e/10.1177_0300060520953234-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/aaefe2c53800/10.1177_0300060520953234-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/a0f84d48a520/10.1177_0300060520953234-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/65d0ff3b0fd6/10.1177_0300060520953234-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/1f881b035307/10.1177_0300060520953234-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/e219f4f74570/10.1177_0300060520953234-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/9555dd68e06b/10.1177_0300060520953234-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/770f44d05f83/10.1177_0300060520953234-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/cfa7201c030e/10.1177_0300060520953234-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/aaefe2c53800/10.1177_0300060520953234-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/a0f84d48a520/10.1177_0300060520953234-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/65d0ff3b0fd6/10.1177_0300060520953234-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/1f881b035307/10.1177_0300060520953234-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/e219f4f74570/10.1177_0300060520953234-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/9555dd68e06b/10.1177_0300060520953234-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d8c8/7513414/770f44d05f83/10.1177_0300060520953234-fig8.jpg

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