Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma
Novel biomarkers are highly required for the diagnosis and predicting prognosis of hepatocellular carcinoma (HCC). In this study, we investigated the profiles of long non-coding RNAs (lncRNAs) obtained from the peripheral blood mononuclear cells (PBMCs) of patients with HCC and PBMCs from a co-cultu...
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MDPI AG
2022-07-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/23/14/7882 |
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| author | Pattapon Kunadirek Nutcha Pinjaroen Intawat Nookaew Pisit Tangkijvanich Natthaya Chuaypen |
| author_facet | Pattapon Kunadirek Nutcha Pinjaroen Intawat Nookaew Pisit Tangkijvanich Natthaya Chuaypen |
| author_sort | Pattapon Kunadirek |
| collection | DOAJ |
| description | Novel biomarkers are highly required for the diagnosis and predicting prognosis of hepatocellular carcinoma (HCC). In this study, we investigated the profiles of long non-coding RNAs (lncRNAs) obtained from the peripheral blood mononuclear cells (PBMCs) of patients with HCC and PBMCs from a co-culture model using transcriptomic analysis. The differentially expressed lncRNAs (DElncRNAs) were then characterized and integrated as cancer-induced lncRNAs. Among them, three up-regulating DElncRNAs including <i>MIR4435-2HG</i>, <i>SNHG9</i> and <i>lnc-LCP2-1</i> and one down-regulating, <i>lnc-POLD3-2</i>, were identified. The functional analysis showed that these enriched lncRNAs were mainly associated with carcinogenesis and immune responses. Following further validation in PBMCs samples (100 HBV-related HCC, 100 chronic hepatitis B and 100 healthy controls), <i>MIR4435-2HG</i>, <i>lnc-POLD3-2</i> and their combination were revealed to be sensitive biomarkers in discriminating HCC from non-HCC (AUROC = 0.78, 0.80, and 0.87, respectively), particularly among individuals with normal serum alpha-fetoprotein levels. Additionally, high circulating <i>SNHG9</i> expression was shown to be an independent prognostic factor of overall survival in patients with HCC. These results indicate that determining these lncRNAs in PBMCs could serve as novel diagnostic and prognostic biomarkers for HBV-related HCC. |
| first_indexed | 2024-03-09T13:41:19Z |
| format | Article |
| id | doaj.art-5f22ff86f47a447d84d6da6572118f51 |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-09T13:41:19Z |
| publishDate | 2022-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-5f22ff86f47a447d84d6da6572118f512023-11-30T21:06:31ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672022-07-012314788210.3390/ijms23147882Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular CarcinomaPattapon Kunadirek0Nutcha Pinjaroen1Intawat Nookaew2Pisit Tangkijvanich3Natthaya Chuaypen4Center of Excellence in Hepatitis and Liver Cancer, Department of Biochemistry, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, ThailandDepartment of Radiology, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, ThailandDepartment of Biomedical Informatics, College of Medicine, University of Arkansas for Medical Sciences, Little Rock, AR 72205, USACenter of Excellence in Hepatitis and Liver Cancer, Department of Biochemistry, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, ThailandCenter of Excellence in Hepatitis and Liver Cancer, Department of Biochemistry, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, ThailandNovel biomarkers are highly required for the diagnosis and predicting prognosis of hepatocellular carcinoma (HCC). In this study, we investigated the profiles of long non-coding RNAs (lncRNAs) obtained from the peripheral blood mononuclear cells (PBMCs) of patients with HCC and PBMCs from a co-culture model using transcriptomic analysis. The differentially expressed lncRNAs (DElncRNAs) were then characterized and integrated as cancer-induced lncRNAs. Among them, three up-regulating DElncRNAs including <i>MIR4435-2HG</i>, <i>SNHG9</i> and <i>lnc-LCP2-1</i> and one down-regulating, <i>lnc-POLD3-2</i>, were identified. The functional analysis showed that these enriched lncRNAs were mainly associated with carcinogenesis and immune responses. Following further validation in PBMCs samples (100 HBV-related HCC, 100 chronic hepatitis B and 100 healthy controls), <i>MIR4435-2HG</i>, <i>lnc-POLD3-2</i> and their combination were revealed to be sensitive biomarkers in discriminating HCC from non-HCC (AUROC = 0.78, 0.80, and 0.87, respectively), particularly among individuals with normal serum alpha-fetoprotein levels. Additionally, high circulating <i>SNHG9</i> expression was shown to be an independent prognostic factor of overall survival in patients with HCC. These results indicate that determining these lncRNAs in PBMCs could serve as novel diagnostic and prognostic biomarkers for HBV-related HCC.https://www.mdpi.com/1422-0067/23/14/7882hepatocellular carcinomaperipheral blood mononuclear cellstranscriptomic profilelong non-coding RNAbiomarkeralpha-fetoprotein |
| spellingShingle | Pattapon Kunadirek Nutcha Pinjaroen Intawat Nookaew Pisit Tangkijvanich Natthaya Chuaypen Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma International Journal of Molecular Sciences hepatocellular carcinoma peripheral blood mononuclear cells transcriptomic profile long non-coding RNA biomarker alpha-fetoprotein |
| title | Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma |
| title_full | Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma |
| title_fullStr | Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma |
| title_full_unstemmed | Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma |
| title_short | Transcriptomic Analyses Reveal Long Non-Coding RNA in Peripheral Blood Mononuclear Cells as a Novel Biomarker for Diagnosis and Prognosis of Hepatocellular Carcinoma |
| title_sort | transcriptomic analyses reveal long non coding rna in peripheral blood mononuclear cells as a novel biomarker for diagnosis and prognosis of hepatocellular carcinoma |
| topic | hepatocellular carcinoma peripheral blood mononuclear cells transcriptomic profile long non-coding RNA biomarker alpha-fetoprotein |
| url | https://www.mdpi.com/1422-0067/23/14/7882 |
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