west china medical publishers
Keyword
  • Title
  • Author
  • Keyword
  • Abstract
Advance search
Advance search

Search

find Keyword "TCGA" 2 results
  • Identification of immune cell-related biomarkers in lung adenocarcinoma using weighted gene co-expression network analysis

    Objective To identify the immune cell-related biomarkers in lung adenocarcinoma using weighted gene co-expression network. Methods In this study, based on TCGA database, gene co-expression network was constructed in TCGA-LUAD by WGCNA package, and different gene modules were formed by clustering. At the same time, ESTIMATE analysis was performed on lung adenocarcinoma tumor samples in the TCGA-LUAD dataset. Gene enrichment pathways in the most significant related modules were evaluated by GO and KEGG assays. Candidate hub genes in the selected key modules were used to construct protein-protein interaction (PPI) network for intersection to obtain hub genes. The prognostic properties of these hub genes and patient immune cell infiltration were verified by Kaplan-Meier curve and TIMER algorithm. Multivariate Cox regression analysis was performed on the acquired hub gene and a prognostic risk model was constructed. Results In the co-expression network, we observed that the brown module was closely related to ImmuneScore, StromalScore and ESTIMATE Score. Five immune-related hub genes CD53, PLEK, SPI1, IL10RA and C3AR1 were obtained. The enrichment analysis of brown module found that module genes were mainly enriched in GO items such as innate immune response regulation and KEGG pathways such as NF-kappa B signaling pathway. In addition, the results of this study also found that the expression levels of 5 hub genes were significantly positively correlated with the infiltration abundance of immune cells. IPS and TIDE validated the immune relevance of the model. At the same time, we found that the RiskScore we established has great potential in predicting immunotherapy. Conclusion In summary, the five key genes related to immune cells obtained may provide new and effective potential targets for the immunotherapy of lung adenocarcinoma, which is also beneficial to provide personalized diagnosis and treatment strategies for patients with lung adenocarcinoma in the later stage.

    Release date: Export PDF Favorites Scan
  • 利用 TCGA 数据库构建男性乳腺癌的lncRNA-miRNA-mRNA ceRNA 网络

    目的通过构建男性乳腺癌的竞争性内源 RNA(ceRNA)调控网络,探讨其发病机制。方法从 TCGA 数据库(The Cancer Genome Atlas Database)中下载男性乳腺癌的长链非编码 RNA(lncRNA)、微小 RNA(miRNA)和 mRNA 的表达谱数据,通过 R 软件的 limma 数据包分析男性乳腺癌差异表达的 lncRNA、miRNA 和 mRNA;分析三者之间的靶向调控关系,构建 ceRNA 网络,并用 Cytoscape 软件可视化,并将差异表达基因进行 GO 富集和 KEGG 通路分析。结果男性乳腺癌中差异表达的 lncRNA 为 275 种,差异表达的 miRNA 为 33 种,差异表达的 mRNA 为 1 675 种。本研究成功构建了男性乳腺癌的 lncRNA-miRNA-mRNA ceRNA 网络后,GO 富集分析显示,差异表达 mRNA 参与细胞增殖的负调控、转录的负调控、细胞蛋白质代谢过程的调控、细胞迁移的调控、转移酶活性的正调控、间充质细胞增殖的正调控等。KEGG 通路分析显示,差异表达 mRNA 参与癌症的途径、白细胞跨内皮迁移、丝裂原活化蛋白激酶(MAPK)和神经营养蛋白信号通路。结论本研究基于 TCGA 数据库成功构建了男性乳腺癌的 ceRNA 网络。

    Release date:2021-04-25 05:33 Export PDF Favorites Scan
1 pages Previous 1 Next

Format

Content