Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues
Gastric cancer (GC) has a high incidence worldwide, and when detected, the majority of patients have already progressed to advanced stages. Long non-coding RNAs (lncRNAs) have a wide range of biological functions and affect tumor occurrence and development. However, the potential role of lncRNAs in...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2022-04-01
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| Series: | Frontiers in Genetics |
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| Online Access: | https://www.frontiersin.org/articles/10.3389/fgene.2022.833857/full |
| _version_ | 1818010068914798592 |
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| author | Xin-Yuan Liu Tian-Qi Zhang Qi Zhang Jing Guo Peng Zhang Tao Mao Zi-Bin Tian Cui-Ping Zhang Xiao-Yu Li |
| author_facet | Xin-Yuan Liu Tian-Qi Zhang Qi Zhang Jing Guo Peng Zhang Tao Mao Zi-Bin Tian Cui-Ping Zhang Xiao-Yu Li |
| author_sort | Xin-Yuan Liu |
| collection | DOAJ |
| description | Gastric cancer (GC) has a high incidence worldwide, and when detected, the majority of patients have already progressed to advanced stages. Long non-coding RNAs (lncRNAs) have a wide range of biological functions and affect tumor occurrence and development. However, the potential role of lncRNAs in GC diagnosis remains unclear. We selected five high-quality samples from each group of chronic non-atrophic gastritis, gastric mucosal intraepithelial neoplasia, and GC tissues for analysis. RNA-seq was used to screen the differentially expressed lncRNAs, and we identified 666 differentially expressed lncRNAs between the chronic non-atrophic gastritis and GC groups, 13 differentially expressed lncRNAs between the gastric mucosal intraepithelial neoplasia and GC groups, and 507 differentially expressed lncRNAs between the chronic non-atrophic gastritis and gastric mucosal intraepithelial neoplasia groups. We also identified six lncRNAs (lncRNA H19, LINC00895, lnc-SRGAP2C-16, lnc-HLA-C-2, lnc-APOC1-1, and lnc-B3GALT2-1) which not only differentially expressed between the chronic non-atrophic gastritis and GC groups, but also differentially expressed between the gastric mucosal intraepithelial neoplasia and GC groups. Furthermore, RT-qPCR was used to verify the differentially co-expressed lncRNAs. LncSEA was used to conduct a functional analysis of differentially expressed lncRNAs. We also predicted the target mRNAs of the differentially expressed lncRNAs through bioinformatics analysis and analyzed targeting correlations between three differentially co-expressed lncRNAs and mRNAs (lncRNA H19, LINC00895, and lnc-SRGAP2C-16). Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases were used to explore the functions of target mRNAs of differentially expressed lncRNAs. In conclusion, our study provides a novel perspective on the potential functions of differentially expressed lncRNAs in GC occurrence and development, indicating that the differentially expressed lncRNAs might be new biomarkers for early GC diagnosis. |
| first_indexed | 2024-04-14T05:50:37Z |
| format | Article |
| id | doaj.art-a6af5234f7b44e529caba302ef290341 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-04-14T05:50:37Z |
| publishDate | 2022-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-a6af5234f7b44e529caba302ef2903412022-12-22T02:09:08ZengFrontiers Media S.A.Frontiers in Genetics1664-80212022-04-011310.3389/fgene.2022.833857833857Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer TissuesXin-Yuan Liu0Tian-Qi Zhang1Qi Zhang2Jing Guo3Peng Zhang4Tao Mao5Zi-Bin Tian6Cui-Ping Zhang7Xiao-Yu Li8Department of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, Qingdao Women and Children’s Hospital, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaDepartment of Gastroenterology, The Affiliated Hospital of Qingdao University, Qingdao, ChinaGastric cancer (GC) has a high incidence worldwide, and when detected, the majority of patients have already progressed to advanced stages. Long non-coding RNAs (lncRNAs) have a wide range of biological functions and affect tumor occurrence and development. However, the potential role of lncRNAs in GC diagnosis remains unclear. We selected five high-quality samples from each group of chronic non-atrophic gastritis, gastric mucosal intraepithelial neoplasia, and GC tissues for analysis. RNA-seq was used to screen the differentially expressed lncRNAs, and we identified 666 differentially expressed lncRNAs between the chronic non-atrophic gastritis and GC groups, 13 differentially expressed lncRNAs between the gastric mucosal intraepithelial neoplasia and GC groups, and 507 differentially expressed lncRNAs between the chronic non-atrophic gastritis and gastric mucosal intraepithelial neoplasia groups. We also identified six lncRNAs (lncRNA H19, LINC00895, lnc-SRGAP2C-16, lnc-HLA-C-2, lnc-APOC1-1, and lnc-B3GALT2-1) which not only differentially expressed between the chronic non-atrophic gastritis and GC groups, but also differentially expressed between the gastric mucosal intraepithelial neoplasia and GC groups. Furthermore, RT-qPCR was used to verify the differentially co-expressed lncRNAs. LncSEA was used to conduct a functional analysis of differentially expressed lncRNAs. We also predicted the target mRNAs of the differentially expressed lncRNAs through bioinformatics analysis and analyzed targeting correlations between three differentially co-expressed lncRNAs and mRNAs (lncRNA H19, LINC00895, and lnc-SRGAP2C-16). Gene Ontology and Kyoto Encyclopedia of Genes and Genomes databases were used to explore the functions of target mRNAs of differentially expressed lncRNAs. In conclusion, our study provides a novel perspective on the potential functions of differentially expressed lncRNAs in GC occurrence and development, indicating that the differentially expressed lncRNAs might be new biomarkers for early GC diagnosis.https://www.frontiersin.org/articles/10.3389/fgene.2022.833857/fulllong non-coding RNAschronic non-atrophic gastritisgastric mucosal intraepithelial neoplasiagastric cancergene expression |
| spellingShingle | Xin-Yuan Liu Tian-Qi Zhang Qi Zhang Jing Guo Peng Zhang Tao Mao Zi-Bin Tian Cui-Ping Zhang Xiao-Yu Li Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues Frontiers in Genetics long non-coding RNAs chronic non-atrophic gastritis gastric mucosal intraepithelial neoplasia gastric cancer gene expression |
| title | Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues |
| title_full | Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues |
| title_fullStr | Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues |
| title_full_unstemmed | Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues |
| title_short | Differential Long Non-Coding RNA Expression Analysis in Chronic Non-Atrophic Gastritis, Gastric Mucosal Intraepithelial Neoplasia, and Gastric Cancer Tissues |
| title_sort | differential long non coding rna expression analysis in chronic non atrophic gastritis gastric mucosal intraepithelial neoplasia and gastric cancer tissues |
| topic | long non-coding RNAs chronic non-atrophic gastritis gastric mucosal intraepithelial neoplasia gastric cancer gene expression |
| url | https://www.frontiersin.org/articles/10.3389/fgene.2022.833857/full |
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