Akhtar Arbaz, Hameed Yasir, Ejaz Samina, Abdullah Iqra
Department of Biochemistry & Molecular Biology, Institute of Biochemistry, Biotechnology and Bioinformatics (IBBB), The Islamia University of Bahawalpur, Bahawalpur, (63100), Pakistan.
Department of Biotechnology & Molecular Biology, Institute of Biochemistry, Biotechnology and Bioinformatics (IBBB), The Islamia University of Bahawalpur, Bahawalpur, (63100), Pakistan.
Biochem Biophys Rep. 2024 Nov 24;40:101880. doi: 10.1016/j.bbrep.2024.101880. eCollection 2024 Dec.
Gastric cancer is among the most prevalent cancers worldwide including in Pakistan. Late diagnosis of gastric cancer leads to reduced survival. The present study aimed to investigate biomarkers for early diagnosis and prognosis of gastric cancer. For this purpose, the ten microarray-based gene expression datasets (GSE54129, GSE79973, GSE161533, GSE103236, GSE33651, GSE19826, GSE118916, GSE112369, GSE13911, and GSE81948) were retrieved from GEO database and analyzed by GEO2R to identify differentially expressed genes. Datasets were arranged in subsets of different dataset combinations to identify common DEGs. The gene ontology and functional pathway enrichment analysis of common DEGs was performed by DAVID tool. Pan-cancer analysis was conducted by UALCAN database. Survival analysis of common DEGs was done by Kaplan-Meier plotter. A total of 71 common DEGs were identified in different combinations of datasets. Among them, only 5 DEGs namely ATP4B, ATP4A, CCKBR, KCNJ15, and KCNJ16 were detected to be common in all the datasets. The GO and pathway analysis represented that the identified DEGs are involved in gastric acid secretion and collecting duct acid secretion pathways. Further expression validation of these five genes using three additional datasets (GSE31811, GSE26899, and GSE26272) confirmed their differential expression in gastric cancer samples. The pan-cancer analysis also revealed aberrant expression of DEGs in various cancers. The survival analysis showed the association of these 5 DEGs with poor survival of gastric cancer patients. To conclude, this study revealed a panel of 5 genes, which can be employed as diagnostic and prognostic biomarkers of gastric cancer patients.
胃癌是包括巴基斯坦在内的全球最常见的癌症之一。胃癌的晚期诊断会导致生存率降低。本研究旨在探究胃癌早期诊断和预后的生物标志物。为此，从基因表达综合数据库（GEO）中检索了十个基于微阵列的基因表达数据集（GSE54129、GSE79973、GSE161533、GSE103236、GSE33651、GSE19826、GSE118916、GSE112369、GSE13911和GSE81948），并通过GEO2R进行分析以识别差异表达基因。将数据集按不同数据集组合的子集进行排列，以识别共同的差异表达基因。通过DAVID工具对共同差异表达基因进行基因本体论和功能通路富集分析。通过UALCAN数据库进行泛癌分析。通过Kaplan-Meier绘图仪对共同差异表达基因进行生存分析。在数据集的不同组合中总共鉴定出71个共同差异表达基因。其中，只有5个差异表达基因，即ATP4B、ATP4A、CCKBR、KCNJ15和KCNJ16在所有数据集中都被检测到是共同的。基因本体论和通路分析表明，所鉴定的差异表达基因参与胃酸分泌和集合管酸分泌途径。使用另外三个数据集（GSE31811、GSE26899和GSE26272）对这五个基因进行进一步的表达验证，证实了它们在胃癌样本中的差异表达。泛癌分析还揭示了差异表达基因在各种癌症中的异常表达。生存分析显示这5个差异表达基因与胃癌患者的不良生存相关。总之，本研究揭示了一组5个基因，可作为胃癌患者的诊断和预后生物标志物。
