Transcriptomic study of gastrointestinal stromal tumors with liver metastasis
Introduction: GIST (gastrointestinal stromal tumor) is the most prominent mesenchymal neoplasms of the gastrointestinal tract, and liver is the most common metastasis site for GIST. The molecular mechanism leading to liver metastasis of GIST is currently unclear.Methods: With the goal of revealing t...
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Frontiers Media S.A.
2023-02-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2023.1007135/full |
| _version_ | 1828005636524212224 |
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| author | Jianrong Guo Shoucheng Feng Hong Yu Biyi Ou Dan Jiang Wei Zhuang Chao Ding Xiaojiang Chen Miaoquan Zhang Yudong Ling Yi Zeng Haibo Qiu |
| author_facet | Jianrong Guo Shoucheng Feng Hong Yu Biyi Ou Dan Jiang Wei Zhuang Chao Ding Xiaojiang Chen Miaoquan Zhang Yudong Ling Yi Zeng Haibo Qiu |
| author_sort | Jianrong Guo |
| collection | DOAJ |
| description | Introduction: GIST (gastrointestinal stromal tumor) is the most prominent mesenchymal neoplasms of the gastrointestinal tract, and liver is the most common metastasis site for GIST. The molecular mechanism leading to liver metastasis of GIST is currently unclear.Methods: With the goal of revealing the underlying mechanism, we performed whole-genome gene expression profiling on 18 pairs of RNA samples comprised of GIST tissues (with liver metastasis) and corresponding non-tumor tissues. After identifying differentially expressed gene, functional annotation and signal pathway analyses were conducted. GSE13861, datasets that compare GIST (without liver metastasis) with adjacent tissues, served as a comparison.Results: A total of 492 up-regulated genes and 629 down-regulated genes were identified as differentially expressed genes between liver metastasis tissues and non-tumor tissues. We characterized expression patterns of DEGs identified from our cohort and GSE13861 that show signatures of enrichment for functionality. In subsequent gene set enrichment analysis, differentially expressed genes were mainly enriched in Epithelial Mesenchymal Transition in both datasets. 493 genes were overlapped among our whole-genome gene expression profiling results and GSE13861, consisting 188 up-regulated genes and 305 down-regulated genes. By using CytoHubba plugin of Cytoscape, CDH1, CD34, KIT, PROM1, SOX9, FGF2, CD24, ALDH1A1, JAG1 and NES were identified as top ten hub genes in tumorigenesis and liver metastasis of GIST. higher expression levels of FGF2, JAG1, CD34, ALDH1A1 and the lower expression level of CDH1 were respectively associated with unfavorable overall survival. Meanwhile higher expression levels of CD34, FGF2, KIT, JAG1, ALDH1A were correlated with worse disease-free survival.Discussion: The present study may help to provide candidate pathways and targets for treatment of GIST and prevention methods to liver metastasis. |
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| language | English |
| last_indexed | 2024-04-10T07:35:57Z |
| publishDate | 2023-02-01 |
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| series | Frontiers in Genetics |
| spelling | doaj.art-c645effd53e14d829a884e60647824992023-02-23T12:53:37ZengFrontiers Media S.A.Frontiers in Genetics1664-80212023-02-011410.3389/fgene.2023.10071351007135Transcriptomic study of gastrointestinal stromal tumors with liver metastasisJianrong Guo0Shoucheng Feng1Hong Yu2Biyi Ou3Dan Jiang4Wei Zhuang5Chao Ding6Xiaojiang Chen7Miaoquan Zhang8Yudong Ling9Yi Zeng10Haibo Qiu11Department of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Pharmacy, Women and Children's Hospital, School of Medicine, Xiamen University, Xiamen, Fujian, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaDepartment of Gastric Surgery, State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-Sen University Cancer Center, Guangzhou, ChinaIntroduction: GIST (gastrointestinal stromal tumor) is the most prominent mesenchymal neoplasms of the gastrointestinal tract, and liver is the most common metastasis site for GIST. The molecular mechanism leading to liver metastasis of GIST is currently unclear.Methods: With the goal of revealing the underlying mechanism, we performed whole-genome gene expression profiling on 18 pairs of RNA samples comprised of GIST tissues (with liver metastasis) and corresponding non-tumor tissues. After identifying differentially expressed gene, functional annotation and signal pathway analyses were conducted. GSE13861, datasets that compare GIST (without liver metastasis) with adjacent tissues, served as a comparison.Results: A total of 492 up-regulated genes and 629 down-regulated genes were identified as differentially expressed genes between liver metastasis tissues and non-tumor tissues. We characterized expression patterns of DEGs identified from our cohort and GSE13861 that show signatures of enrichment for functionality. In subsequent gene set enrichment analysis, differentially expressed genes were mainly enriched in Epithelial Mesenchymal Transition in both datasets. 493 genes were overlapped among our whole-genome gene expression profiling results and GSE13861, consisting 188 up-regulated genes and 305 down-regulated genes. By using CytoHubba plugin of Cytoscape, CDH1, CD34, KIT, PROM1, SOX9, FGF2, CD24, ALDH1A1, JAG1 and NES were identified as top ten hub genes in tumorigenesis and liver metastasis of GIST. higher expression levels of FGF2, JAG1, CD34, ALDH1A1 and the lower expression level of CDH1 were respectively associated with unfavorable overall survival. Meanwhile higher expression levels of CD34, FGF2, KIT, JAG1, ALDH1A were correlated with worse disease-free survival.Discussion: The present study may help to provide candidate pathways and targets for treatment of GIST and prevention methods to liver metastasis.https://www.frontiersin.org/articles/10.3389/fgene.2023.1007135/fullgastrointestinal stromal tumorepithelial mesenchymal transitionliver metastasistumorigenesisdifferentially expressed genes (DEG) |
| spellingShingle | Jianrong Guo Shoucheng Feng Hong Yu Biyi Ou Dan Jiang Wei Zhuang Chao Ding Xiaojiang Chen Miaoquan Zhang Yudong Ling Yi Zeng Haibo Qiu Transcriptomic study of gastrointestinal stromal tumors with liver metastasis Frontiers in Genetics gastrointestinal stromal tumor epithelial mesenchymal transition liver metastasis tumorigenesis differentially expressed genes (DEG) |
| title | Transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| title_full | Transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| title_fullStr | Transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| title_full_unstemmed | Transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| title_short | Transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| title_sort | transcriptomic study of gastrointestinal stromal tumors with liver metastasis |
| topic | gastrointestinal stromal tumor epithelial mesenchymal transition liver metastasis tumorigenesis differentially expressed genes (DEG) |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2023.1007135/full |
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