应用生物信息学技术筛选蒙古族与汉族人群胰腺癌差异表达基因。
Screening differentially expressed genes of pancreatic cancer between Mongolian and Han people using bioinformatics technology.
机构信息
Department of Pathology, the First Affiliated Hospital of Nanchang University, No.17 YONGWAIZHENG Street, Nanchang, 330006, Jiangxi, China.
Department of Clinical Laboratory, the Second Affiliated Hospital of Nanchang University, No. 1 Minde Road, Nanchang, 330006, Jiangxi, China.
出版信息
BMC Cancer. 2020 Apr 9;20(1):298. doi: 10.1186/s12885-020-06722-7.
BACKGROUND
To screen and analyze differentially expressed genes in pancreatic carcinoma tissues taken from Mongolian and Han patients by Affymetrix Genechip.
METHODS
Pancreatic ductal cell carcinoma tissues were collected from the Mongolian and Han patients undergoing resection in the Second Affiliated Hospital of Nanchang University from March 2015 to May 2018 and the total RNA was extracted. Differentially expressed genes were selected from the total RNA qualified by Nanodrop 2000 and Agilent 2100 using Affymetrix and a cartogram was drawn; The gene ontology (GO) analysis and Pathway analysis were used for the collection and analysis of biological information of these differentially expressed genes. Finally, some differentially expressed genes were verified by real-time PCR.
RESULTS
Through the microarray analysis of gene expression, 970 differentially expressed genes were detected by comparing pancreatic cancer tissue samples between Mongolian and Han patients. A total of 257 genes were significantly up-regulated in pancreatic cancer tissue samples in Mongolian patients; while a total of 713 genes were down-regulated. In the Gene Ontology database, 815 differentially expressed genes were identified with clear GO classification, and CPB1 gene showed the highest increase in expression level (multiple difference: 31.76). The pathway analysis detected 28 signaling pathways that included these differentially expressed genes, involving a total of 178 genes. Among these pathways, the enrichment of differentially expressed genes in the FAK signaling pathway was the strongest and COL11A1 gene showed the highest multiple difference (multiple difference: 5.02). The expression of differentially expressed genes CPB1, COL11A1、ITGA4、BIRC3、PAK4、CPA1、CLPS、PIK3CG and HLA-DPA1 determined by real-time PCR were consistent with the results of gene microarray analysis.
CONCLUSIONS
The results of microarray analysis of gene expression profiles showed that there are a large number of differentially expressed genes in pancreatic cancer tissue samples comparing Mongolian and Han population. These genes are closely related to the cell proliferation, differentiation, invasion, metastasis and multi-drug resistance in pancreatic cancer. They are also involved in the regulation of multiple important signaling pathways in organisms.
背景
通过 Affymetrix Genechip 筛选和分析蒙古族和汉族患者胰腺癌组织中的差异表达基因。
方法
收集 2015 年 3 月至 2018 年 5 月南昌大学第二附属医院蒙古族和汉族患者手术切除的胰腺导管细胞癌组织，提取总 RNA。使用 Affymetrix 和 cartogram 从经 Nanodrop 2000 和 Agilent 2100 合格的总 RNA 中选择差异表达基因，并绘制基因图谱；对这些差异表达基因进行基因本体（GO）分析和通路分析，收集和分析其生物信息。最后，通过实时 PCR 验证部分差异表达基因。
结果
通过对蒙古族和汉族患者胰腺癌组织样本的基因表达微阵列分析，共检测到 970 个差异表达基因。蒙古族患者胰腺癌组织样本中共有 257 个基因明显上调，而 713 个基因下调。在基因本体数据库中，共鉴定到 815 个具有明确 GO 分类的差异表达基因，其中 CPB1 基因表达水平升高最显著（倍数差异：31.76）。通路分析检测到 28 个包含这些差异表达基因的信号通路，共涉及 178 个基因。其中，FAK 信号通路中差异表达基因的富集程度最强，COL11A1 基因的倍数差异最高（倍数差异：5.02）。实时 PCR 测定的差异表达基因 CPB1、COL11A1、ITGA4、BIRC3、PAK4、CPA1、CLPS、PIK3CG 和 HLA-DPA1 的表达与基因微阵列分析结果一致。
结论
基因表达谱微阵列分析结果表明，蒙古族和汉族人群胰腺癌组织样本中存在大量差异表达基因。这些基因与胰腺癌细胞的增殖、分化、侵袭、转移和多药耐药密切相关，还涉及生物体中多个重要信号通路的调节。
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