Zhongyuan Chen, Yaqian Xiao, Pinhong Yang, Ruisong Wang
{"title":"泛癌分析显示SRC可能与脂质代谢和巨噬细胞有关。","authors":"Zhongyuan Chen, Yaqian Xiao, Pinhong Yang, Ruisong Wang","doi":"10.30498/ijb.2023.335402.3325","DOIUrl":null,"url":null,"abstract":"<p><strong>Background: </strong>SRC is a member of the membrane-associated non-receptor protein tyrosine kinase superfamily. It has been reported to mediate inflammation and cancer. However, the exact molecular mechanism involved is still not clear.</p><p><strong>Objectives: </strong>The current study was designed to explore the prognostic landscape of <i>SRC</i> and further investigate the relationship between <i>SRC</i> and immune infiltration in pan-cancer.</p><p><strong>Materials and methods: </strong>Kaplan-Meier Plotter was used to detect the prognostic value of <i>SRC</i> in pan-cancer. Then using TIMER2.0 and CIBERSORT, the relationship between <i>SRC</i> and immune infiltration in pan-cancer was evaluated. Furthermore, the LinkedOmics database was used to screen <i>SRC</i> co-expressed genes, followed by functional enrichment of <i>SRC</i> co-expressed genes by Metascape online tool. STRING database and Cytoscape software were applied to construct and visualise the protein-protein interaction network of <i>SRC</i> co-expressed genes. MCODE plug-in was used to screen hub modules in the PPI network. The <i>SRC</i> co-expressed genes in hub modules were extracted, and the correlation analysis between interested <i>SRC</i> co-expressed genes and immune infiltration was conducted via TIMER2.0 and CIBERSORT.</p><p><strong>Results: </strong>Our study demonstrated that SRC expression was significantly associated with overall survival and relapse-free survival in multiple cancer types. In addition, SRC expression was significantly correlated with the immune infiltration of B cells, dendritic cells, CD4<sup>+</sup> T cells, macrophages, and neutrophils in pan-cancer. The expression of SRC had shown to have close correlations with M1 macrophage polarisation in LIHC, TGCT, THCA, and THYM. Moreover, the genes that co-expressed with SRC in LIHC, TGCT, THCA, and THYM were mainly enriched in lipid metabolism. Besides, correlation analysis showed that SRC co-expressed genes associated with lipid metabolism were also significantly correlated with the infiltration and polarisation of macrophages.</p><p><strong>Conclusion: </strong>These results indicate that SRC can serve as a prognostic biomarker in pan-cancer and is related to macrophages infiltration and interacts with genes involved in lipid metabolism.</p>","PeriodicalId":14492,"journal":{"name":"Iranian Journal of Biotechnology","volume":"21 2","pages":"e3325"},"PeriodicalIF":1.6000,"publicationDate":"2023-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/fc/6d/IJB-21-e3325.PMC10203188.pdf","citationCount":"0","resultStr":"{\"title\":\"Pan-cancer Analysis Reveals SRC May Link Lipid Metabolism and Macrophages.\",\"authors\":\"Zhongyuan Chen, Yaqian Xiao, Pinhong Yang, Ruisong Wang\",\"doi\":\"10.30498/ijb.2023.335402.3325\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><strong>Background: </strong>SRC is a member of the membrane-associated non-receptor protein tyrosine kinase superfamily. It has been reported to mediate inflammation and cancer. However, the exact molecular mechanism involved is still not clear.</p><p><strong>Objectives: </strong>The current study was designed to explore the prognostic landscape of <i>SRC</i> and further investigate the relationship between <i>SRC</i> and immune infiltration in pan-cancer.</p><p><strong>Materials and methods: </strong>Kaplan-Meier Plotter was used to detect the prognostic value of <i>SRC</i> in pan-cancer. Then using TIMER2.0 and CIBERSORT, the relationship between <i>SRC</i> and immune infiltration in pan-cancer was evaluated. Furthermore, the LinkedOmics database was used to screen <i>SRC</i> co-expressed genes, followed by functional enrichment of <i>SRC</i> co-expressed genes by Metascape online tool. STRING database and Cytoscape software were applied to construct and visualise the protein-protein interaction network of <i>SRC</i> co-expressed genes. MCODE plug-in was used to screen hub modules in the PPI network. The <i>SRC</i> co-expressed genes in hub modules were extracted, and the correlation analysis between interested <i>SRC</i> co-expressed genes and immune infiltration was conducted via TIMER2.0 and CIBERSORT.</p><p><strong>Results: </strong>Our study demonstrated that SRC expression was significantly associated with overall survival and relapse-free survival in multiple cancer types. In addition, SRC expression was significantly correlated with the immune infiltration of B cells, dendritic cells, CD4<sup>+</sup> T cells, macrophages, and neutrophils in pan-cancer. The expression of SRC had shown to have close correlations with M1 macrophage polarisation in LIHC, TGCT, THCA, and THYM. Moreover, the genes that co-expressed with SRC in LIHC, TGCT, THCA, and THYM were mainly enriched in lipid metabolism. Besides, correlation analysis showed that SRC co-expressed genes associated with lipid metabolism were also significantly correlated with the infiltration and polarisation of macrophages.</p><p><strong>Conclusion: </strong>These results indicate that SRC can serve as a prognostic biomarker in pan-cancer and is related to macrophages infiltration and interacts with genes involved in lipid metabolism.</p>\",\"PeriodicalId\":14492,\"journal\":{\"name\":\"Iranian Journal of Biotechnology\",\"volume\":\"21 2\",\"pages\":\"e3325\"},\"PeriodicalIF\":1.6000,\"publicationDate\":\"2023-04-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"https://ftp.ncbi.nlm.nih.gov/pub/pmc/oa_pdf/fc/6d/IJB-21-e3325.PMC10203188.pdf\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Iranian Journal of Biotechnology\",\"FirstCategoryId\":\"5\",\"ListUrlMain\":\"https://doi.org/10.30498/ijb.2023.335402.3325\",\"RegionNum\":4,\"RegionCategory\":\"生物学\",\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q4\",\"JCRName\":\"BIOTECHNOLOGY & APPLIED MICROBIOLOGY\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Iranian Journal of Biotechnology","FirstCategoryId":"5","ListUrlMain":"https://doi.org/10.30498/ijb.2023.335402.3325","RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q4","JCRName":"BIOTECHNOLOGY & APPLIED MICROBIOLOGY","Score":null,"Total":0}
Pan-cancer Analysis Reveals SRC May Link Lipid Metabolism and Macrophages.
Background: SRC is a member of the membrane-associated non-receptor protein tyrosine kinase superfamily. It has been reported to mediate inflammation and cancer. However, the exact molecular mechanism involved is still not clear.
Objectives: The current study was designed to explore the prognostic landscape of SRC and further investigate the relationship between SRC and immune infiltration in pan-cancer.
Materials and methods: Kaplan-Meier Plotter was used to detect the prognostic value of SRC in pan-cancer. Then using TIMER2.0 and CIBERSORT, the relationship between SRC and immune infiltration in pan-cancer was evaluated. Furthermore, the LinkedOmics database was used to screen SRC co-expressed genes, followed by functional enrichment of SRC co-expressed genes by Metascape online tool. STRING database and Cytoscape software were applied to construct and visualise the protein-protein interaction network of SRC co-expressed genes. MCODE plug-in was used to screen hub modules in the PPI network. The SRC co-expressed genes in hub modules were extracted, and the correlation analysis between interested SRC co-expressed genes and immune infiltration was conducted via TIMER2.0 and CIBERSORT.
Results: Our study demonstrated that SRC expression was significantly associated with overall survival and relapse-free survival in multiple cancer types. In addition, SRC expression was significantly correlated with the immune infiltration of B cells, dendritic cells, CD4+ T cells, macrophages, and neutrophils in pan-cancer. The expression of SRC had shown to have close correlations with M1 macrophage polarisation in LIHC, TGCT, THCA, and THYM. Moreover, the genes that co-expressed with SRC in LIHC, TGCT, THCA, and THYM were mainly enriched in lipid metabolism. Besides, correlation analysis showed that SRC co-expressed genes associated with lipid metabolism were also significantly correlated with the infiltration and polarisation of macrophages.
Conclusion: These results indicate that SRC can serve as a prognostic biomarker in pan-cancer and is related to macrophages infiltration and interacts with genes involved in lipid metabolism.
期刊介绍：
Iranian Journal of Biotechnology (IJB) is published quarterly by the National Institute of Genetic Engineering and Biotechnology. IJB publishes original scientific research papers in the broad area of Biotechnology such as, Agriculture, Animal and Marine Sciences, Basic Sciences, Bioinformatics, Biosafety and Bioethics, Environment, Industry and Mining and Medical Sciences.
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