Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression
Background: Hepatocellular carcinoma (HCC) is a significant global health challenge with complex molecular underpinnings. Recent advancements in understanding the role of non-coding RNAs (ncRNAs) and exosomes in cancer biology have opened new avenues for research into potential diagnostic and therap...
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| Format: | Article |
| Language: | English |
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Elsevier
2025-07-01
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| Series: | Practical Laboratory Medicine |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2352551725000174 |
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| author | Farzin Mirzaei-nasab Ahmad Majd Yousef Seyedena Nazanin Hosseinkhan Najma Farahani Mehrdad Hashemi |
| author_facet | Farzin Mirzaei-nasab Ahmad Majd Yousef Seyedena Nazanin Hosseinkhan Najma Farahani Mehrdad Hashemi |
| author_sort | Farzin Mirzaei-nasab |
| collection | DOAJ |
| description | Background: Hepatocellular carcinoma (HCC) is a significant global health challenge with complex molecular underpinnings. Recent advancements in understanding the role of non-coding RNAs (ncRNAs) and exosomes in cancer biology have opened new avenues for research into potential diagnostic and therapeutic strategies. Methods: This study utilized a comprehensive approach to analyze gene expression patterns and regulatory networks in HCC. We integrated RNA sequencing data gathered from both tissue samples and exosomes. The WGCNA and limma R packages were employed to construct co-expression networks and identify differentially expressed ncRNAs, including long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs). Results: Our analysis demonstrated distinct expression profiles of various ncRNAs in HCC, revealing their intricate interactions with cancer-related genes. Key findings include the identification of a network of microRNAs that interact with selected lncRNAs and their potential roles as biomarkers. Moreover, exosomal RNA was shown to effectively reflect tissue-specific gene expression changes. Conclusions: The results of this study highlight the significance of exosomal ncRNAs in the progression of liver cancer, suggesting their potential as both diagnostic biomarkers and therapeutic targets. Future research should focus on the functional implications of these ncRNAs to further elucidate their roles in HCC and explore their applications in clinical settings. |
| format | Article |
| id | doaj-art-03a6c33ec1cf4f099322cd18bdee62b7 |
| institution | OA Journals |
| issn | 2352-5517 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Practical Laboratory Medicine |
| spelling | doaj-art-03a6c33ec1cf4f099322cd18bdee62b72025-08-20T02:35:36ZengElsevierPractical Laboratory Medicine2352-55172025-07-0145e0046410.1016/j.plabm.2025.e00464Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progressionFarzin Mirzaei-nasab0Ahmad Majd1Yousef Seyedena2Nazanin Hosseinkhan3Najma Farahani4Mehrdad Hashemi5Department of Genetics, Faculty of Biological Sciences, North Tehran Branch, Islamic Azad University, Tehran, Iran, SureDepartment of Genetics, Faculty of Biological Sciences, North Tehran Branch, Islamic Azad University, Tehran, Iran, SureDepartment of Genetics, Faculty of Biological Sciences, North Tehran Branch, Islamic Azad University, Tehran, Iran, SureEndocrine Research Center, Institute of Endocrinology and Metabolism, Iran University of Medical Sciences, Tehran, Iran; Corresponding author.Farhikhtegan Medical Convergence Sciences Research Center, Farhikhtegan Hospital Tehran Medical Sciences, Islamic Azad University, Tehran, Iran; Corresponding author.Farhikhtegan Medical Convergence Sciences Research Center, Farhikhtegan Hospital Tehran Medical Sciences, Islamic Azad University, Tehran, Iran; Department of Genetics, Faculty of Advanced Science and Technology, Tehran Medical Sciences, Islamic Azad University, Tehran, Iran; Corresponding author. Farhikhtegan Medical Convergence Sciences Research Center, Farhikhtegan Hospital Tehran Medical Sciences, Islamic Azad University, Tehran, Iran.Background: Hepatocellular carcinoma (HCC) is a significant global health challenge with complex molecular underpinnings. Recent advancements in understanding the role of non-coding RNAs (ncRNAs) and exosomes in cancer biology have opened new avenues for research into potential diagnostic and therapeutic strategies. Methods: This study utilized a comprehensive approach to analyze gene expression patterns and regulatory networks in HCC. We integrated RNA sequencing data gathered from both tissue samples and exosomes. The WGCNA and limma R packages were employed to construct co-expression networks and identify differentially expressed ncRNAs, including long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs). Results: Our analysis demonstrated distinct expression profiles of various ncRNAs in HCC, revealing their intricate interactions with cancer-related genes. Key findings include the identification of a network of microRNAs that interact with selected lncRNAs and their potential roles as biomarkers. Moreover, exosomal RNA was shown to effectively reflect tissue-specific gene expression changes. Conclusions: The results of this study highlight the significance of exosomal ncRNAs in the progression of liver cancer, suggesting their potential as both diagnostic biomarkers and therapeutic targets. Future research should focus on the functional implications of these ncRNAs to further elucidate their roles in HCC and explore their applications in clinical settings.http://www.sciencedirect.com/science/article/pii/S2352551725000174Hepatocellular carcinomaSystems biologyExosomesNon-coding RNALiver cancerBiomarkers |
| spellingShingle | Farzin Mirzaei-nasab Ahmad Majd Yousef Seyedena Nazanin Hosseinkhan Najma Farahani Mehrdad Hashemi Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression Practical Laboratory Medicine Hepatocellular carcinoma Systems biology Exosomes Non-coding RNA Liver cancer Biomarkers |
| title | Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression |
| title_full | Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression |
| title_fullStr | Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression |
| title_full_unstemmed | Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression |
| title_short | Integrative analysis of exosomal ncRNAs and their regulatory networks in liver cancer progression |
| title_sort | integrative analysis of exosomal ncrnas and their regulatory networks in liver cancer progression |
| topic | Hepatocellular carcinoma Systems biology Exosomes Non-coding RNA Liver cancer Biomarkers |
| url | http://www.sciencedirect.com/science/article/pii/S2352551725000174 |
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