Expression profile of SYNE3 and bioinformatic analysis of its prognostic value and functions in tumors
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Journal of Translational Medicine Open Access
RESEARCH
Expression profile of SYNE3 and bioinformatic analysis of its prognostic value and functions in tumors Liwei Liao1†, Longshan Zhang1†, Mi Yang1, Xiaoqing Wang1, Weiqiang Huang1, Xixi Wu1, Hua Pan1, Lu Yuan2, Wenqi Huang2, Yuting Wu2 and Jian Guan1*
Abstract Background: Spectrin repeat containing nuclear envelope family member 3 (SYNE3) encodes an essential component of the linker of the cytoskeleton and nucleoskeleton (LINC) complex, namely nesprin-3. In a tumor, invasiveness and metastasis rely on the integrity of the LINC complex, while the role of SYNE3/nesprin-3 in cancer is rarely studied. Methods: Here, we explored the expression pattern, prognostic value, and related mechanisms of SYNE3 through both experimental and bioinformatic methods. We first detected SYNE3 in BALB/c mice, normal human tissues, and the paired tumor tissues, then used bioinformatics databases to verify our results. We further analyzed the prognostic value of SYNE3. Next, we predicted miRNA targeting SYNE3 and built a competing endogenous RNA (ceRNA) network and a transcriptional network by analyzing data from the cancer genome atlas (TCGA) database. Interacting genes of SYNE3 were predicted, and we further performed GO and KEGG enrichment analysis on these genes. Besides, the relationship between SYNE3 and immune infiltration was also investigated. Results: SYNE3 exhibited various expressions in different tissues, mainly located on nuclear and in cytoplasm sometimes. SYNE3 expression level had prognostic value in tumors, possibly by stabilizing nucleus, promoting tumor cells apoptosis, and altering tumor microenvironment. Additionally, we constructed a RP11-2B6.2-miR-149-5p-/RP1167L2.2-miR-330-3p-SYNE3 ceRNA network and a SATB1-miR-149-5p-SYNE3 transcriptional network in lung adenocarcinoma to support the tumor-suppressing role of SYNE3. Conclusions: Our study explored novel anti-tumor functions and mechanisms of SYNE3, which might be useful for future cancer therapy. Keywords: SYNE3, Expression profile, CeRNA network, Immune infiltration, Bioinformatic analysis, Tumor Background Tumor malignancies has been greatly endangering public health for a long time. It was estimated that there were 17.0 million new cancer cases and 9.5 million cancer deaths worldwide in 2018. Therefore, prevention and *Correspondence: [email protected] † Liwei Liao, Longshan Zhang contributed equally 1 Department of Radiation Oncology, Nanfang Hospital, Southern Medical University, Guangzhou, Guangdong, China Full list of author information is available at the end of the article
treatment of tumor became a significant health-care issue. With the development of sequencing technologies, genomic markers are increasingly used in tumor study, including tumor gene mutations and patterns of tumor gene expression. Gene markers can help with judging tumor development process, predicting treatment effect, reducing recurrence rate and mortality, and prolonging survival. Most cancer types have some classic but
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