• Investigating changes in the expression of ATP4B and ATP4A genes as potential factors in gastric cancer: a study based on gene expression omnibus (GEO) and bioinformatics analysis.
  • Marziyeh Sadat Musavi Babukabi,1,* Shiva Ebrahimpour,2 Mohammad Rezaei,3
    1. Department of Cell and Molecular Biology & Microbiology, Faculty of Biological Science and Technology, University of Isfahan, P.O. Box: 8174673441, Isfahan, Iran
    2. Department of Cell and Molecular Biology & Microbiology, Faculty of Biological Science and Technology, University of Isfahan, P.O. Box: 8174673441, Isfahan, Iran
    3. Zist Fanavary Novin Institute , Isfahan 14115-111 Iran


  • Introduction: Gastric cancer (GC) is the fifth most common cancer and the third leading cause of cancer death in the world. Stomach cancer, also called gastric cancer, begins when the healthy cells of the stomach change and become abnormal and grow out of control, and the result of these excessive divisions is the formation of a tumor. This type of cancer is caused by glandular cells in the innermost lining of the stomach (mucosa). Risk factors for this disease include: include Helicobacter pylori infection, age, high salt intake, and diets low in fruit and vegetables. This study aims to discover a new mechanism that has shown the interaction between RNAs (mRNAs, lncRNAs, miRNAs). In cancer cells, these interactions (expression levels) change compared to normal conditions and provide useful information about the disease
  • Methods: The significance of gene expression in gastric cancer was analyzed by analyzing raw data (GSE29272) from the Gene Expression Omnibus (GEO) database and then by GEO2R to find differentially expressed genes (DEGs) and also from the databases miRWalk, KEGG PATHWAY, lncBase v.3, STRING, GeneCards were used.
  • Results: ATP4B gene with logFC=6.054, which has the highest expression change among the genes related to this disease, together with ATP4A gene with logFC=5.213 can be effective in gastric cancer and regulate the progress of this disease. Using the KEGG PATHWAY database, it was found that Metabolic pathways(Glucose metabolism in gastric cancer cells differs from that of normal epithelial cells) and Gastric acid secretion signaling pathways for these two genes can be effective in this disease by influencing these signaling pathways. Then miRWALK was used to find miRNAs for ATP4B gene mRNA in the 3UTR region of this mRNA and hsa-miR-518a-3p and hsa-miR-27a-5p miRNAs were selected. hsa-miR-518a-3p miRNA was used to find lncRNAs in lncbase v.3 database and LINC00987 and SCARNA9 lncRNAs were found to have strong interactions. ENCORI was also used to validate the selected lncRNAs. STRING was used to find the interaction between the protein of this gene and other proteins, and this protein is related to ATP7B and ATP12A proteins.
  • Conclusion: According to these findings, it can be concluded that the higher expression of ATP4B and ATP4A genes and the effect on the signaling pathway of gastric acid secretion and metabolic pathways, as well as the creation of a possible ceRNA regulatory network between hsa-miR-518a-3p and LINC00987, SCARNA9 and their regulatory effect on the mRNA of this gene, can cause stomach cancer.According to these findings, it can be concluded that the higher expression of ATP4B and ATP4A genes and the effect on the signaling pathway of gastric acid secretion and metabolic pathways, as well as the creation of a possible ceRNA regulatory network between hsa-miR-518a-3p and LINC00987, SCARNA9 and their regulatory effect on the mRNA of this gene, can cause Gastric cancer.
  • Keywords: Gastric Cancer , GSE29272 , ATP4B ,ATP4A , miRNA