Constructing a novel competing Endogenous RNAs network based on NR3C1 and X-linked inhibitor of apoptosis protein genes reveals potential prognostic biomarkers in colorectal cancer

Mohammad Abdolvand; Minoosh Sadeghi; Mohammad Hassan Emami; Alireza Fahim; Hojjatolah Rahimi; Elham Amjadi; Abdolmehdi Baghaei; Shirin Abdolvand; Fatemeh Maghool; Sara Feizbakhshan; Sharareh Salmanizadeh; Ehsan Heidari; Mohammad Chehelgerdi; Mahsa Khodadoostan; Maryam Ebrahim; Faeze Ahmadi Beni; Mohammad Kazemi; Simin Hemati; Farinaz Khosravian; Hassan Rahimi; Alireza Samadian; Mansoor Salehi

doi:10.4103/jrms.jrms_889_21

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ORIGINAL ARTICLE

Year : 2022 | Volume : 27 | Issue : 1 | Page : 71

Constructing a novel competing Endogenous RNAs network based on NR3C1 and X-linked inhibitor of apoptosis protein genes reveals potential prognostic biomarkers in colorectal cancer

Mohammad Abdolvand¹, Minoosh Sadeghi², Mohammad Hassan Emami³, Alireza Fahim³, Hojjatolah Rahimi³, Elham Amjadi³, Abdolmehdi Baghaei³, Shirin Abdolvand⁴, Fatemeh Maghool³, Sara Feizbakhshan⁵, Sharareh Salmanizadeh⁵, Ehsan Heidari⁶, Mohammad Chehelgerdi⁷, Mahsa Khodadoostan⁸, Maryam Ebrahim⁸, Faeze Ahmadi Beni⁹, Mohammad Kazemi¹⁰, Simin Hemati¹¹, Farinaz Khosravian¹, Hassan Rahimi³, Alireza Samadian³, Mansoor Salehi¹
¹ Molecular and Genetics Research Center, Isfahan University of Medical Sciences; Medical Genetics Research Center of Genome, Isfahan University of Medical Sciences; Department of Genetics and Molecular Biology, School of Medicine, Isfahan University of Medical Science, Isfahan, Iran
² Department of Genetics, Faculty of Sciences, Shahrekord University, Shahrekord, Iran
³ Poursina Hakim Digestive Diseases Research Center, Isfahan University of Medical Sciences, Isfahan, Iran
⁴ Department of Genetics, Faculty of Sciences, Islamic Azad University, Shahrekord Branch, Shahrekord, Iran
⁵ Molecular and Genetics Research Center, Isfahan University of Medical Sciences; Medical Genetics Research Center of Genome, Isfahan University of Medical Sciences, Isfahan, Iran
⁶ Young Researchers and Elite Club, Shahrekord Branch, Islamic Azad University, Shahrekord; Blood Transfusion Research Center, High Institute for Research and Education in Transfusion Medicine, Tehran, Iran
⁷ Young Researchers and Elite Club, Shahrekord Branch, Islamic Azad University, Shahrekord, Iran
⁸ Department of Gastroenterology and Hepatology, AlZahra Hospital, Isfahan University of Medical Sciences, Isfahan, Iran
⁹ Medical Genetics Research Center of Genome, Isfahan University of Medical Sciences; Department of Genetics and Molecular Biology, School of Medicine, Isfahan University of Medical Science, Isfahan, Iran
¹⁰ Department of Genetics and Molecular Biology, School of Medicine, Isfahan University of Medical Science, Isfahan, Iran
¹¹ Department of Radiooncology, School of Medicine, Isfahan University of Medical Sciences, Isfahan, Iran

Correspondence Address:
Dr. Simin Hemati
Department of Radiooncology, School of Medicine, Seyyed Al-Shohada Hospital, Isfahan University of Medical Sciences, Isfahan
Iran

Source of Support: None, Conflict of Interest: None

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DOI: 10.4103/jrms.jrms_889_21

Background: Long noncoding RNAs (lncRNAs) have been recognized as the main modulatory molecules in various cancers and perform as competing endogenous RNAs (ceRNAs). The nuclear hormone receptor superfamily of ligand-activated transcription factors (NR3C1) regulates numerous proliferative and metabolic processes such as tumorigenesis and metabolic diseases. Furthermore, X-linked inhibitor of apoptosis protein (XIAP) belongs to a family of the inhibitors of apoptosis proteins, is located downstream of the glucocorticoid receptor (GR or NR3C1) pathway, and cooperates with GR to suppress apoptosis. However, the underlying mechanisms of NR3C1 and XIAP in colorectal cancer (CRC) remain mainly unclear. This research aims to clarify the potential RNA biomarkers and to construct a novel ceRNA network in CRC. Materials and Methods: Multistep bioinformatics methods such as Lnc2cancer and miRDB databases were applied to identify candidate lncRNAs and miRNAs. The interaction energy between lncRNAs, NR3C1, and XIAP genes was analyzed by the LncRRIsearch database. Plus, microRNAs and lncRNA were evaluated via the Diana tools database to select microRNAs with the most binding scores. Quantitative reverse transcription–polymerase chain reaction (QRT-PCR) was applied to verify RNA molecules' expression levels and their association with the clinicopathological factors in 30 CRC tissues compared to 30 adjacent tissues. Results: QRT-PCR showed upregulation of KCNQ1OT1, NR3C1, and XIAP and downregulation of miR-421. The ceRNA network was constructed with 17 lncRNAs, 2 mRNAs, and 42 miRNAs. Thus, we explained the potential interactions between KCNQ1OT1 and miR-421 with NR3C1 and XIAP genes. Conclusion: Our study represents potential prognostic biomarkers and a new ceRNA network for further study in CRC.

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