Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study
The incidence and mortality of hepatocellular carcinoma (HCC) in Sub-Saharan Africa is projected to increase sharply by 2040 against a backdrop of limited diagnostic and therapeutic options. Two large South African-based case control studies have developed a serum-based miRNome for Hepatitis B-assoc...
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| Format: | Article |
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MDPI AG
2024-01-01
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| Series: | International Journal of Molecular Sciences |
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| Online Access: | https://www.mdpi.com/1422-0067/25/2/975 |
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| author | Kurt Sartorius Benn Sartorius Cheryl Winkler Anil Chuturgoon Tsai-Wei Shen Yongmei Zhao Ping An |
| author_facet | Kurt Sartorius Benn Sartorius Cheryl Winkler Anil Chuturgoon Tsai-Wei Shen Yongmei Zhao Ping An |
| author_sort | Kurt Sartorius |
| collection | DOAJ |
| description | The incidence and mortality of hepatocellular carcinoma (HCC) in Sub-Saharan Africa is projected to increase sharply by 2040 against a backdrop of limited diagnostic and therapeutic options. Two large South African-based case control studies have developed a serum-based miRNome for Hepatitis B-associated hepatocellular carcinoma (HBV-HCC), as well as identifying their gene targets and pathways. Using a combination of RNA sequencing, differential analysis and filters including a unique molecular index count (UMI) ≥ 10 and log fold change (LFC) range > 2: <−0.5 (<i>p</i> < 0.05), 91 dysregulated miRNAs were characterized including 30 that were upregulated and 61 were downregulated. KEGG analysis, a literature review and other bioinformatic tools identified the targeted genes and HBV-HCC pathways of the top 10 most dysregulated miRNAs. The results, which are based on differentiating miRNA expression of cases versus controls, also develop a serum-based miRNA diagnostic panel that indicates 95.9% sensitivity, 91.0% specificity and a Youden Index of 0.869. In conclusion, the results develop a comprehensive African HBV-HCC miRNome that potentially can contribute to RNA-based diagnostic and therapeutic options. |
| first_indexed | 2024-03-08T09:54:09Z |
| format | Article |
| id | doaj.art-bdffa2a7633e430f95025ef1526f30ac |
| institution | Directory Open Access Journal |
| issn | 1661-6596 1422-0067 |
| language | English |
| last_indexed | 2024-03-08T09:54:09Z |
| publishDate | 2024-01-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | International Journal of Molecular Sciences |
| spelling | doaj.art-bdffa2a7633e430f95025ef1526f30ac2024-01-29T13:55:56ZengMDPI AGInternational Journal of Molecular Sciences1661-65961422-00672024-01-0125297510.3390/ijms25020975Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African StudyKurt Sartorius0Benn Sartorius1Cheryl Winkler2Anil Chuturgoon3Tsai-Wei Shen4Yongmei Zhao5Ping An6Faculty of Commerce, Law and Management, University of the Witwatersrand, Johannesburg 2001, South AfricaSchool of Public Health, University of Queensland, Brisbane, QLD 4102, AustraliaCentre for Cancer Research, Basic Research Laboratory, National Cancer Institute, Frederick Natifol Laboratory for Cancer Research, National Institute of Health, Frederick, MD 21701, USASchool of Laboratory Medicine and Molecular Sciences, University of Kwazulu-Natal, Durban 4041, South AfricaCCR-SF Bioinformatics Group, Frederick National Laboratory for Cancer Research, Frederick, MD 21701, USACCR-SF Bioinformatics Group, Frederick National Laboratory for Cancer Research, Frederick, MD 21701, USACentre for Cancer Research, Basic Research Laboratory, National Cancer Institute, Frederick Natifol Laboratory for Cancer Research, National Institute of Health, Frederick, MD 21701, USAThe incidence and mortality of hepatocellular carcinoma (HCC) in Sub-Saharan Africa is projected to increase sharply by 2040 against a backdrop of limited diagnostic and therapeutic options. Two large South African-based case control studies have developed a serum-based miRNome for Hepatitis B-associated hepatocellular carcinoma (HBV-HCC), as well as identifying their gene targets and pathways. Using a combination of RNA sequencing, differential analysis and filters including a unique molecular index count (UMI) ≥ 10 and log fold change (LFC) range > 2: <−0.5 (<i>p</i> < 0.05), 91 dysregulated miRNAs were characterized including 30 that were upregulated and 61 were downregulated. KEGG analysis, a literature review and other bioinformatic tools identified the targeted genes and HBV-HCC pathways of the top 10 most dysregulated miRNAs. The results, which are based on differentiating miRNA expression of cases versus controls, also develop a serum-based miRNA diagnostic panel that indicates 95.9% sensitivity, 91.0% specificity and a Youden Index of 0.869. In conclusion, the results develop a comprehensive African HBV-HCC miRNome that potentially can contribute to RNA-based diagnostic and therapeutic options.https://www.mdpi.com/1422-0067/25/2/975microRNA (miRNA)dysregulatedmodulategene targetspathwayshepatitis B-associated carcinoma (HBV-HCC) |
| spellingShingle | Kurt Sartorius Benn Sartorius Cheryl Winkler Anil Chuturgoon Tsai-Wei Shen Yongmei Zhao Ping An Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study International Journal of Molecular Sciences microRNA (miRNA) dysregulated modulate gene targets pathways hepatitis B-associated carcinoma (HBV-HCC) |
| title | Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study |
| title_full | Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study |
| title_fullStr | Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study |
| title_full_unstemmed | Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study |
| title_short | Serum microRNA Profiles and Pathways in Hepatitis B-Associated Hepatocellular Carcinoma: A South African Study |
| title_sort | serum microrna profiles and pathways in hepatitis b associated hepatocellular carcinoma a south african study |
| topic | microRNA (miRNA) dysregulated modulate gene targets pathways hepatitis B-associated carcinoma (HBV-HCC) |
| url | https://www.mdpi.com/1422-0067/25/2/975 |
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