Yu K, Zhang D, Yao Q, Pan X, Wang G, Qian HY, Xiao Y, Chen Q, Mei K. Identification of functional genes regulating gastric cancer progression using integrated bioinformatics analysis. World J Clin Cases 2023; 11(21): 5023-5034 [PMID: 37583848 DOI: 10.12998/wjcc.v11.i21.5023]
This article is an open-access article which was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: http://creativecommons.org/licenses/by-nc/4.0/
World J Clin Cases. Jul 26, 2023; 11(21): 5023-5034 Published online Jul 26, 2023. doi: 10.12998/wjcc.v11.i21.5023
Identification of functional genes regulating gastric cancer progression using integrated bioinformatics analysis
Kun Yu, Dong Zhang, Qiang Yao, Xing Pan, Gang Wang, Hai-Yang Qian, Yao Xiao, Qiong Chen, Ke Mei
Kun Yu, Qiang Yao, Xing Pan, Gang Wang, Hai-Yang Qian, Qiong Chen, Ke Mei, Department of Radiology, Shanghai Xuhui Dahua Hospital, Shanghai 200090, China
Dong Zhang, Department of Spinal Surgery, Yueyang Hospital of Integrated Traditional Chinese and Western Medicine, Shanghai University of Traditional Chinese Medicine, Shanghai 200090, China
Yao Xiao, Division of Chemistry and Ionizing Radiation Measurement Technology, Shanghai Institute of Measurement and Testing Technology, Shanghai 200090, China
Author contributions: Yu K, Xiao Y, and Mei K contributed to study concept and design, data mining and bioinformatic analysis, preparation of the manuscript, and obtained funding; Qian HY and Pan X carried out experiments, data analysis, and preparation of figures; Wang G and Pan X carried out analysis; Mei K and Zhang D contributed to study design and obtained funding.
Institutional review board statement: The study was reviewed and approved by the Shanghai Yueyang Hospital Institutional Review Board (Approval No. 20210316).
Informed consent statement: All study participants, or their legal guardian, provided informed written consent prior to study enrollment.
Conflict-of-interest statement: The authors have no conflicts of interest to disclose.
Data sharing statement: No additional data are available.
Open-Access: This article is an open-access article that was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution NonCommercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: https://creativecommons.org/Licenses/by-nc/4.0/
Received: March 3, 2023 Peer-review started: March 3, 2023 First decision: May 19, 2023 Revised: June 1, 2023 Accepted: June 26, 2023 Article in press: June 26, 2023 Published online: July 26, 2023 Processing time: 145 Days and 11.7 Hours
Abstract
BACKGROUND
Gastric cancer (GC) is one of the most common cancers and has a poor prognosis. Treatment of GC has remained unchanged over the past few years.
AIM
To investigate the potential therapeutic targets and related regulatory biomarkers of GC.
METHODS
We obtained the public GC transcriptome sequencing dataset from the Gene Expression Omnibus database. The datasets contained 348 GC tissues and 141 healthy tissues. In total, 251 differentially expressed genes (DEGs) were identified, including 187 down-regulated genes and 64 up-regulated genes. The DEGs’ enriched functions and pathways include Progesterone-mediated oocyte maturation, cell cycle, and oocyte meiosis, Hepatitis B, and the Hippo signaling pathway. Survival analysis showed that BUB1, MAD2L1, CCNA2, CCNB1, and BIRC5 may be associated with regulation of the cell cycle phase mitotic spindle checkpoint pathway. We selected 26 regulated genes with the aid of the protein-protein interaction network analyzed by Molecular Complex Detection.
RESULTS
We focused on three critical genes, which were highly expressed in GC, but negatively related to patient survival. Furthermore, we found that knockdown of BIRC5, TRIP13 or UBE2C significantly inhibited cell proliferation and induced cell apoptosis. In addition, knockdown of BIRC5, TRIP13 or UBE2C increased cellular sensitivity to cisplatin.
CONCLUSION
Our study identified significantly upregulated genes in GC with a poor prognosis using integrated bioinformatics methods.
Core Tip: Gastric cancer (GC) is one of the most common malignancies of the digestive system with few genetic markers for its early detection and prevention. 348 GC tissues and 141 normal tissues were analyzed in this study; 251 differentially expressed genes (DEGs) were identified including 187 down-regulated genes and 64 up-regulated genes. Significantly upregulated genes with a poor prognosis in GC were detected using integrated bioinformatics methods. Furthermore, the molecular mechanism of GC via bioinformatics analysis showed three DEGs (BIRC5, TRIP13, or UBE2C) which play key roles in the progression of CG.
