The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma
Introduction Hepatocellular carcinoma (HCC) is a common malignant tumour of the digestive system, which is a threat to public health. The purpose of this study was to investigate the featured genes and pathways of HCC from a bioinformatics database, and verify their correlation with diagnosis and pr...
| Main Authors: | , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Termedia Publishing House
2019-11-01
|
| Series: | Archives of Medical Science |
| Subjects: | |
| Online Access: | https://www.archivesofmedicalscience.com/The-identification-and-preliminary-study-of-lncRNA-TUG1-and-its-related-genes-in,109746,0,2.html |
| _version_ | 1797435315781107712 |
|---|---|
| author | Lei Li Shuiping Liu Li Peng Yapen Zhang Yaqin Zhang Haiyan Zeng Guanchen Li Chaoyang Zhang |
| author_facet | Lei Li Shuiping Liu Li Peng Yapen Zhang Yaqin Zhang Haiyan Zeng Guanchen Li Chaoyang Zhang |
| author_sort | Lei Li |
| collection | DOAJ |
| description | Introduction
Hepatocellular carcinoma (HCC) is a common malignant tumour of the digestive system, which is a threat to public health. The purpose of this study was to investigate the featured genes and pathways of HCC from a bioinformatics database, and verify their correlation with diagnosis and prognosis of HCC.
Material and methods
We downloaded the gene expression profile on HCC from the Gene Expression Omnibus (GEO), and software R was used to identify differentially expressed lncRNA (DEL). The target genes of the lncRNA were further predicted by using a cluster database and molecular interaction database. Subsequently, a combined interaction network of target genes was constructed using the Cytoscape platform with preliminary verification at the level of different databases, cell lines, and tissues. Finally, we explored the effectiveness of TUG1 and its target genes on the diagnosis and prognosis of HCC by univariate Cox analysis and survival analysis.
Results
A total of four DELs were identified and the most remarkably up-regulated lncRNA was TUG1, which included 12 high-confidence target genes. Moreover, we found that the expression changes of TUG1 and its target genes in different databases, cell lines, and liver cancer tissues were consistent with the prediction. The high expression of TUG1 and its target genes could significantly predict the shorter survival time of HCC patients, among which NCAPG, MCM6, PIGC, PEA15, and RACGAP1 have significant diagnostic value for HCC (AUC > 0.9).
Conclusions
This study provides a starting point for the screening of therapeutically relevant targets in HCC. Further experiment should be conducted to verify our findings. |
| first_indexed | 2024-03-09T10:46:24Z |
| format | Article |
| id | doaj.art-5c9c8f87d1ec495c80c83ef5b6e4aa9e |
| institution | Directory Open Access Journal |
| issn | 1734-1922 1896-9151 |
| language | English |
| last_indexed | 2024-03-09T10:46:24Z |
| publishDate | 2019-11-01 |
| publisher | Termedia Publishing House |
| record_format | Article |
| series | Archives of Medical Science |
| spelling | doaj.art-5c9c8f87d1ec495c80c83ef5b6e4aa9e2023-12-01T09:59:22ZengTermedia Publishing HouseArchives of Medical Science1734-19221896-91512019-11-011861582159510.5114/aoms.2019.89707109746The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinomaLei Li0Shuiping Liu1Li Peng2Yapen Zhang3Yaqin Zhang4Haiyan Zeng5Guanchen Li6Chaoyang Zhang7Key Laboratory of Carcinogenesis of the Chinese Ministry of Health and the Key Laboratory of Carcinogenesis and Cancer Invasion of Chinese Ministry of Education, Xiangya Hospital, Central South University, Changsha, ChinaSchool of Basic Medical Science, Central South University, Changsha, ChinaGuangdong Province Key Laboratory of Malignant Tumor Epigenetics and Gene Regulation, Research Center of Medicine, Sun Yat-Sen Memorial Hospital, Sun Yat-Sen University, Guangzhou, ChinaSchool of Basic Medical Science, Central South University, Changsha, ChinaKey Laboratory of Carcinogenesis of the Chinese Ministry of Health and the Key Laboratory of Carcinogenesis and Cancer Invasion of Chinese Ministry of Education, Xiangya Hospital, Central South University, Changsha, ChinaSchool of Basic Medical Science, Central South University, Changsha, ChinaKey Laboratory of Carcinogenesis of the Chinese Ministry of Health and the Key Laboratory of Carcinogenesis and Cancer Invasion of Chinese Ministry of Education, Xiangya Hospital, Central South University, Changsha, ChinaCancer Research Institute, Central South University, Changsha, ChinaIntroduction Hepatocellular carcinoma (HCC) is a common malignant tumour of the digestive system, which is a threat to public health. The purpose of this study was to investigate the featured genes and pathways of HCC from a bioinformatics database, and verify their correlation with diagnosis and prognosis of HCC. Material and methods We downloaded the gene expression profile on HCC from the Gene Expression Omnibus (GEO), and software R was used to identify differentially expressed lncRNA (DEL). The target genes of the lncRNA were further predicted by using a cluster database and molecular interaction database. Subsequently, a combined interaction network of target genes was constructed using the Cytoscape platform with preliminary verification at the level of different databases, cell lines, and tissues. Finally, we explored the effectiveness of TUG1 and its target genes on the diagnosis and prognosis of HCC by univariate Cox analysis and survival analysis. Results A total of four DELs were identified and the most remarkably up-regulated lncRNA was TUG1, which included 12 high-confidence target genes. Moreover, we found that the expression changes of TUG1 and its target genes in different databases, cell lines, and liver cancer tissues were consistent with the prediction. The high expression of TUG1 and its target genes could significantly predict the shorter survival time of HCC patients, among which NCAPG, MCM6, PIGC, PEA15, and RACGAP1 have significant diagnostic value for HCC (AUC > 0.9). Conclusions This study provides a starting point for the screening of therapeutically relevant targets in HCC. Further experiment should be conducted to verify our findings.https://www.archivesofmedicalscience.com/The-identification-and-preliminary-study-of-lncRNA-TUG1-and-its-related-genes-in,109746,0,2.htmlhepatocellular carcinomatug1vgll4hmgn4pigc |
| spellingShingle | Lei Li Shuiping Liu Li Peng Yapen Zhang Yaqin Zhang Haiyan Zeng Guanchen Li Chaoyang Zhang The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma Archives of Medical Science hepatocellular carcinoma tug1 vgll4 hmgn4 pigc |
| title | The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma |
| title_full | The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma |
| title_fullStr | The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma |
| title_full_unstemmed | The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma |
| title_short | The identification and preliminary study of lncRNA TUG1 and its related genes in hepatocellular carcinoma |
| title_sort | identification and preliminary study of lncrna tug1 and its related genes in hepatocellular carcinoma |
| topic | hepatocellular carcinoma tug1 vgll4 hmgn4 pigc |
| url | https://www.archivesofmedicalscience.com/The-identification-and-preliminary-study-of-lncRNA-TUG1-and-its-related-genes-in,109746,0,2.html |
| work_keys_str_mv | AT leili theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT shuipingliu theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT lipeng theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT yapenzhang theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT yaqinzhang theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT haiyanzeng theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT guanchenli theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT chaoyangzhang theidentificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT leili identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT shuipingliu identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT lipeng identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT yapenzhang identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT yaqinzhang identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT haiyanzeng identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT guanchenli identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma AT chaoyangzhang identificationandpreliminarystudyoflncrnatug1anditsrelatedgenesinhepatocellularcarcinoma |