Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Pathways Associated With Clinical Outcome in Hepatocellular Carcinoma
文献类型：期刊论文
| 作者 | Li, Yubin2; Chen, Runzhe3,4; Yang, Jian2; Mo, Shaowei5; Quek, Kelly3,4,6; Kok, Chung H.7,8; Cheng, Xiang-Dong1,9,10; Tian, Saisai2; Zhang, Weidong2; Qin, Jiang-Jiang1,5,9,10 |
| 刊名 | FRONTIERS IN GENETICS
 |
| 出版日期 | 2020-07-24 |
| 卷号 | 11 |
| 关键词 | hepatocellular carcinoma differentially expression genes enrichment analysis survival analysis prognosis |
| DOI | 10.3389/fgene.2020.00814 |
| 通讯作者 | Tian, Saisai(372479584@qq.com) ; Zhang, Weidong(wdzhangy@hotmail.com) ; Qin, Jiang-Jiang(jqin@zcmu.edu.cn) |
| 英文摘要 | Hepatocellular carcinoma (HCC) accounts for approximately 85-90% of all liver cancer cases and has poor relapse-free survival. There are many gene expression studies that have been performed to elucidate the genetic landscape and driver pathways leading to HCC. However, existing studies have been limited by the sample size and thus the pathogenesis of HCC is still unclear. In this study, we performed an integrated characterization using four independent datasets including 320 HCC samples and 270 normal liver tissues to identify the candidate genes and pathways in the progression of HCC. A total of 89 consistent differentially expression genes (DEGs) were identified. Gene-set enrichment analysis revealed that these genes were significantly enriched for cellular response to zinc ion in biological process group, collagen trimer in the cellular component group, extracellular matrix (ECM) structural constituent conferring tensile strength in the molecular function group, protein digestion and absorption, mineral absorption and ECM-receptor interaction. Network system biology based on the protein-protein interaction (PPI) network was also performed to identify the most connected and important genes based on our DEGs. The top five hub genes including osteopontin (SPP1), Collagen alpha-2(I) chain (COL1A2), Insulin-like growth factor I (IGF1), lipoprotein A (LPA), and Galectin-3 (LGALS3) were identified. Western blot and immunohistochemistry analysis were employed to verify the differential protein expression of hub genes in HCC patients. More importantly, we identified that these five hub genes were significantly associated with poor disease-free survival and overall survival. In summary, we have identified a potential clinical significance of these genes as prognostic biomarkers for HCC patients who would benefit from experimental approaches to obtain optimal outcome. |
| WOS关键词 | PROGNOSTIC-FACTOR ; GROWTH-FACTOR ; TUMORIGENESIS ; EXPRESSION ; SURVIVAL ; KEGG ; LIPOPROTEIN(A) ; GALECTIN-3 ; PREDICTION ; PROTECTION |
| 资助项目 | National Natural Science Foundation of China[81520108030] ; National Natural Science Foundation of China[21472238] ; National Natural Science Foundation of China[81903842] ; Shanghai Engineering Research Center for the Preparation of Bioactive Natural Products[16DZ2280200] ; Scientific Foundation of Shanghai China[13401900103] ; Scientific Foundation of Shanghai China[13401900101] ; National Key Research and Development Program of China[2019YFC1711000] ; National Key Research and Development Program of China[2017YFC1700200] ; Shanghai Sailing Program[20YF1459000] ; Program of Zhejiang Provincial TCM Sci-tech Plan[2020ZZ005] ; Zhejiang Chinese Medical University Startup Funding[111100E014] ; Prof. Chang Jiang Scholars Program |
| WOS研究方向 | Genetics & Heredity |
| 语种 | 英语 |
| 出版者 | FRONTIERS MEDIA SA |
| WOS记录号 | WOS:000560519100001 |
| 资助机构 | National Natural Science Foundation of China ; Shanghai Engineering Research Center for the Preparation of Bioactive Natural Products ; Scientific Foundation of Shanghai China ; National Key Research and Development Program of China ; Shanghai Sailing Program ; Program of Zhejiang Provincial TCM Sci-tech Plan ; Zhejiang Chinese Medical University Startup Funding ; Prof. Chang Jiang Scholars Program |
| 源URL | [http://ir.hfcas.ac.cn:8080/handle/334002/70674]  |
| 专题 | 中国科学院合肥物质科学研究院 |
| 通讯作者 | Tian, Saisai; Zhang, Weidong; Qin, Jiang-Jiang |
| 作者单位 | 1.Zhejiang Canc Hosp, Hangzhou, Peoples R China 2.Naval Med Univ, Sch Pharm, Shanghai, Peoples R China 3.Univ Texas MD Anderson Canc Ctr, Dept Thorac Head & Neck Med Oncol, Houston, TX 77030 USA 4.Univ Texas MD Anderson Canc Ctr, Dept Genom Med, Houston, TX 77030 USA 5.Zhejiang Chinese Med Univ, Affiliated Hosp 1, Hangzhou, Peoples R China 6.ASEAN, Accenture Appl Intelligence, Singapore, Singapore 7.South Australian Hlth & Med Res Inst, Precis Med Theme, Adelaide, SA, Australia 8.Univ Adelaide, Discipline Med, Adelaide Med Sch, Adelaide, SA, Australia 9.Chinese Acad Sci, Inst Canc & Basic Med, Hangzhou, Peoples R China 10.Univ Chinese Acad Sci, Canc Hosp, Hangzhou, Peoples R China |
| 推荐引用方式 GB/T 7714 | Li, Yubin,Chen, Runzhe,Yang, Jian,et al. Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Pathways Associated With Clinical Outcome in Hepatocellular Carcinoma[J]. FRONTIERS IN GENETICS,2020,11. |
| APA | Li, Yubin.,Chen, Runzhe.,Yang, Jian.,Mo, Shaowei.,Quek, Kelly.,...&Qin, Jiang-Jiang.(2020).Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Pathways Associated With Clinical Outcome in Hepatocellular Carcinoma.FRONTIERS IN GENETICS,11. |
| MLA | Li, Yubin,et al."Integrated Bioinformatics Analysis Reveals Key Candidate Genes and Pathways Associated With Clinical Outcome in Hepatocellular Carcinoma".FRONTIERS IN GENETICS 11(2020). |
入库方式： OAI收割
来源：合肥物质科学研究院
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