scholarly journals Differentially Expressed Circular RNA Profile in an Intracranial Aneurysm Group Compared with a Healthy Control Group

2021 ◽  
Vol 2021 ◽  
pp. 1-8
Author(s):  
Yonggang Ma ◽  
Baoqing Zhang ◽  
Dong Zhang ◽  
Shuo Wang ◽  
Maogui Li ◽  
...  
Keyword(s):  
Intracranial Aneurysm ◽  
Profile Analysis ◽  
Circular Rna ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Control Group ◽  
Expression Profile Analysis ◽  
Healthy Control ◽  
Polymerase Chain

Objective. Intracranial aneurysm (IA) is a fatal disease owing to vascular rupture and subarachnoid hemorrhage. Much attention has been given to circular RNAs (circRNAs) because they may be potential biomarkers for many diseases, but their mechanism in the formation of IA remains unknown. Methods. circRNA expression profile analysis of blood samples was conducted between patients with IA and controls. Overall, 235 differentially expressed circRNAs were confirmed between IA patients and the control group. The reliability of the microarray results was demonstrated by quantitative real-time polymerase chain reaction (qRT-PCR). Results. Of 235 differentially expressed genes, 150 were upregulated, while the other 85 were downregulated. Five miRNAs matched to every differential expression of circRNAs, and related MREs were predicted. We performed gene ontology (GO) analysis to identify the functions of their targeted genes, with the terms “Homophilic cell adhesion via plasma membrane adhesion molecules” and “Positive regulation of cellular process” showing the highest fold enrichment. Conclusions. This study demonstrated the role of circRNA expression profiling in the formation of IA and revealed that the mTOR pathway can be a latent therapeutic strategy for IA.

scholarly journals Integrative Analysis of CircRNA Expression and Associated ceRNA Network in Graves’ Disease

2021 ◽  
Author(s):  
Zhengrong Jiang ◽  
Linghong Huang ◽  
Lijun Chen ◽  
Jingxiong Zhou ◽  
Xuefeng Bai ◽  
...  
Keyword(s):  
Quantitative Polymerase Chain Reaction ◽  
Family Members ◽  
Circular Rnas ◽  
Newly Diagnosed ◽  
Autoimmune Thyroid ◽  
Competing Endogenous Rnas ◽  
Healthy Control ◽  
Polymerase Chain ◽  
Comprehensive Study

Abstract ObjectiveGraves’ disease (GD) is the most common subtype of autoimmune thyroid disease which have the involvement of circular RNAs (circRNAs) in the pathogenesis. However, it is largely unknown about the role of circRNAs in GD. In present study, we performed a comprehensive study of the circRNAs in GD by bioinformatics analyses.MethodsCircRNAs were detected in plasma of 3 newly diagnosed GD patients and 3 healthy controls. We selected 2 up-regulated and 1 down-regulated circRNAs with different expression in GD for validation by transcriptase-quantitative polymerase chain reaction in both GD and healthy control subjects. The GTRD base was used for predicting the transcript factors of the different expression of circRNAs. Then the competing endogenous RNAs(ceRNAs) network was assembled and the analysis of the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes were performed to predict the functions of different expression of circRNAs.ResultsA total of 366 different expression of circRNAs were detected in GD. The exonic circRNA hsa_circ_0090364 was validated as an up-regulated molecule in GD. 82 transcript factors in promoter region for hsa_circ_0090364 were predicted. The ceRNAs network revealed that the miR-378 family members acted as the target microRNAs of hsa_circ_0090364 and its downstream genes, and also unveiled the involvement of hsa_circ_0090364 in pathogenesis of GD.ConclusionsHsa_circ_0090364 might play a role of ceRNA through sponging up miR-378 family members, which demonstrated that circRNAs had an effect on regulation in GD.

scholarly journals Expression Profiling Identifies Circular RNA Signature in Hepatoblastoma

2018 ◽  
Vol 45 (2) ◽  
pp. 706-719 ◽  
Author(s):  
Bai-Hui Liu ◽  
Bin-Bin Zhang ◽  
Xiang-Qi Liu ◽  
Shan Zheng ◽  
Kui-Ran Dong ◽  
...  
Keyword(s):  
Cell Function ◽  
Cyclic Compound ◽  
Normal Liver ◽  
Circular Rna ◽  
Fine Tuning ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Promising Target

Background/Aims: Hepatoblastoma is the most common malignant pediatric liver cancer. circular RNAs (circRNAs) play important roles in fine-tuning gene expression and are often deregulated in cancers. However, the expression profile and clinical significance of circRNAs in hepatoblastoma is still unknown. Methods: Circular RNA microarray was conducted to identify hepatoblastoma-related circRNAs. GO analysis, pathway analysis, and miRNA response elements analysis was conducted to predict the potential roles of differentially expressed circRNAs in hepatoblastoma. MTT assays, Ki67 staining, and Transwell assays were conducted to clarify the role of circRNA in hepatoblastoma in vitro. Bioinformatics analysis and in vitro experiments were conducted to clarify the mechanism of circRNA-mediated gene regulation in hepatoblastoma cell. Results: 869 differentially expressed circRNAs were identified between hepatoblastoma and adjacent normal liver samples, including 421 up-regulated circRNAs and 448 down-regulated circRNAs. The significant enriched GO term of hepatoblastoma-related circRNAs in biological process, cellular component, and molecular function were “chromosome organization”, “cytoplasm”, and “organic cyclic compound binding”. Tight junction signaling pathway was ranked the Top 1 potentially affected by circRNA-mediated regulatory network. circ_0015756 was significantly up-regulated in human hepatoblastoma specimens and metastatic hepatoblastoma cell lines. circ_0015756 silencing decreased hepatoblastoma cell viability, proliferation, and invasion in vitro. circ_0015756 acted as miR-1250-3p sponge to regulate hepatoblastoma cell function. Conclusions: circRNAs are involved in the pathogenesis of hepatoblastoma. circ_0015756 is a promising target for the prognosis, diagnosis, and treatment of hepatoblastoma.

scholarly journals The Potential Role of hsa_circ_0005505 in the Rupture of Human Intracranial Aneurysm

2021 ◽  
Vol 8 ◽  
Author(s):  
Xin Chen ◽  
Shuzhe Yang ◽  
Junhua Yang ◽  
Qingyuan Liu ◽  
Maogui Li ◽  
...  
Keyword(s):  
Smooth Muscle ◽  
Intracranial Aneurysm ◽  
Vascular Smooth Muscle ◽  
Smooth Muscle Cell ◽  
Intracranial Aneurysms ◽  
Circular Rna ◽  
Circular Rnas ◽  
Ruptured Intracranial Aneurysms

Objective: Recently, abundant number of studies have revealed many functions of circular RNAs in multiple diseases, however, the role of circular RNA in the rupture of human intracranial aneurysm is still unknown. This study aims to explore the potential functions of circular RNA in the rupture of human intracranial aneurysms.Methods: The differentially expressed circular RNAs between un-ruptured intracranial aneurysms (n = 5) and ruptured intracranial aneurysms (n = 5) were analyzed with the Arraystar human circRNAs microarray. Quantitative real-time PCR (qPCR) was used to verify the results of the circRNA microarray. The role of circular RNA in intracranial aneurysm rupture was assessed in vitro. MTT assay, CCK-8 assay, Caspase3/7 assay, assay of cell apoptosis and Celigo wound healing was conducted to evaluate the relationship between circular RNA and the rupture of human intracranial aneurysms.Results: A total of 13,175 circRNA genes were detected. Among them 63 circRNAs upregulated and 54 circRNAs downregulated significantly in ruptured intracranial aneurysms compared with un-ruptured intracranial aneurysms (p < 0.05 Fold Change > 1.5). Five upregulated circRNAs were selected for further study (hsa_circ_0001947, hsa_circ_0043001, hsa_circ_0064557, hsa_circ_0058514, hsa_circ_0005505). The results of qPCR showed only hsa_circ_0005505 significantly upregulated (p < 0.05). The expression of hsa_circ_0005505 was higher in ruptured intracranial aneurysm tissues. And our in vitro data showed that hsa_circRNA_005505 promotes the proliferation, migration and suppresses the apoptosis of vascular smooth muscle cell.Conclusion: This study revealed an important role of hsa_circ_0005505 in the proliferation, migration and apoptosis of vascular smooth muscle cell, and indicated that hsa_circ_0005505 may associate with the pathological process of intracranial aneurysms.

scholarly journals Expression Profile Analysis of Differentially Expressed Circular RNAs in Steroid-Induced Osteonecrosis of the Femoral Head

2019 ◽  
Vol 2019 ◽  
pp. 1-10 ◽  
Author(s):  
Zhongxin Zhu ◽  
Wenxi Du ◽  
Huan Yu ◽  
Hongting Jin ◽  
Peijian Tong
Keyword(s):  
Femoral Head ◽  
Bioinformatics Analysis ◽  
Profile Analysis ◽  
Circular Rnas ◽  
Healthy Individuals ◽  
Bioinformatics Analyses ◽  
Diagnostic Biomarkers ◽  
Qrt Pcr ◽  
Expression Profile Analysis

Background. A growing number of studies have suggested that circular RNAs (circRNAs) serve as potential diagnostic biomarkers in many diseases. However, the role of circRNAs in steroid-induced osteonecrosis of the femoral head (SONFH) has not been reported. Methods. Secondary sequencing was performed to profile circRNA expression in peripheral blood samples from three SONFH patients and three healthy individuals. We confirmed our preliminary findings by qRT-PCR. Bioinformatics analysis was conducted to predict their functions. Results. The result showed 345 dysregulated circRNAs. qRT-PCR of eight selected circRNAs preliminarily confirmed the results, which were consistent with RNA sequencing. Bioinformatics analyses were performed to predict the functions of circRNAs to target the genes of miRNAs and the networks of circRNA-miRNA-mRNA interactions. Conclusions. This study provides a new and fundamental circRNA profile of SONFH and a theoretical basis for further studies on the functions of circRNAs in SONFH.

scholarly journals A 3-circular RNA signature as a noninvasive biomarker for diagnosis of colorectal cancer

2019 ◽  
Vol 19 (1) ◽  
Author(s):  
Dao-xiong Ye ◽  
Si-si Wang ◽  
Ying Huang ◽  
Pan Chi
Keyword(s):  
Colorectal Cancer ◽  
Roc Curves ◽  
Circular Rna ◽  
Diagnostic Value ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Qrt Pcr ◽  
Noninvasive Biomarker ◽  
Proliferation And Metastasis ◽  
Polymerase Chain

Abstract Background Circular RNAs (circRNAs), a novel type of noncoding RNAs, play critical roles in the initiation and progression of cancer. Emerging studies also shows that circRNAs may function as potential markers for cancer diagnosis and treatment. However, the diagnostic value of circRNAs in colorectal cancer (CRC) remains need to be unearthed. Methods CircRNA microarray was performed to detect the differentially expressed circRNAs in eight plasma samples, including four colorectal cancer (CRC) and four normal samples. Besides, the results of microarray were validated by quantitative real-time polymerase chain reaction (qRT-PCR). Moreover, ROC curve evaluation was performed to calculate the diagnostic value of significantly dysregulated circRNAs. In order to predict the potential mechanism of the significant circRNAs, circRNA–miRNA–mRNA network was constructed based on the TargetScan, miRTarBase and MIRDB database, as well as CircInteractome online software. Furthermore, Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were performed to further predict the function of meaningful circRNAs. Results Totally three differentially expressed circRNAs were identified in CRC plasma compared to normal plasma by circRNA microarray analysis, and the results was validated by qRT-PCR. Hsa_circ_0082182, hsa_circ_0000370 and hsa_circ_0035445 were identified and ROC curves analysis was used to calculate the single and joint diagnostic value. Furthermore, GO and KEGG analyses revealed that functions were mainly cancer-related, which indicated that the circRNAs were meaningfully associated with CRC cell proliferation and metastasis. Conclusion In conclusion, we have identified three circRNAs that are dysregulated in CRC plasma, including hsa_circ_0082182, hsa_circ_0000370 and hsa_circ_0035445. ROC curves showed that these circRNAs might have diagnostic value for colorectal cancer. Furthermore, bioinformatics analysis indicated that the above-mentioned circRNAs might be involved in the development of CRC.

scholarly journals The profile analysis of circular RNAs in human placenta of preeclampsia

2018 ◽  
Vol 243 (14) ◽  
pp. 1109-1117 ◽  
Author(s):  
Wenbo Zhou ◽  
Huiyan Wang ◽  
Xian Wu ◽  
Wei Long ◽  
Fangxiu Zheng ◽  
...  
Keyword(s):  
Pregnant Women ◽  
Human Placenta ◽  
Profile Analysis ◽  
Placental Tissue ◽  
Circular Rna ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Qrt Pcr ◽  
Potential Biomarker

A total of 70 pregnant women were recruited for this study, including 35 early onset preeclampsia (PE) and 35 normal pregnant women. By RNA sequencing, the circular RNA (circRNAs) in placenta were identified. Differentially expressed circRNAs were bioinformatics analyzed with gene ontology, Kyoto Encyclopedia of Genes and Genomes, and circRNA–miRNA interaction prediction. Quantitative real time polymerase chain reaction(qRT-PCR) assay was used to verify the results. Compared with the normal pregnant women, there were 49 circRNAs differentially expressed in the placental tissue of PE women, including two circRNAs were up-regulated and 47 were down-regulated. Ten differentially expressed circRNAs were selected for validation by qRT-PCR, among which results of three circRNAs, circRNA_3286, circRNA_5593, and circRNA_3800, were consistent with the sequencing. According to the bioinformatic prediction, we speculate that these circRNAs may be involved in some cellular regulatory functions in PE through their targeted miRNAs. We also evaluated the expression of circRNA_3286 in plasma to be used as a potential biomarker for PE; in vitro Transwell assay shown transfected with si-circ-3286 significantly reduced invasion in HTR8/Svneo cells. In conclusion, we displayed a preliminary landscape of circRNA differential expression in PE and discussed their possible regulatory mechanisms. This study revealed a new insight into the molecular mechanism of PE. Impact statement The abnormal expression of many regulatory factors may be involved in the development of PE. circRNAs are proved to have a series of important biological functions; however, reports about circRNA and PE are rare. In this work, we evaluated the profile analysis of circRNAs in human placenta of PE by RNA-seq and found some newly differentially expressed circRNAs which might be involved in PE. Combined with bioinformatics analysis, their possible functions were preliminarily discussed.

scholarly journals Bioinformatics Analysis of circRNA Expression and Construction of “circRNA-miRNA-mRNA” Competing Endogenous RNAs Networks in Bipolar Disorder Patients

2021 ◽  
Vol 12 ◽  
Author(s):  
Yonghui Fu ◽  
Wenfeng He ◽  
Chaoxiong Zhou ◽  
Xia Fu ◽  
Qigen Wan ◽  
...  
Keyword(s):  
Bipolar Disorder ◽  
Rna Sequencing ◽  
Enrichment Analysis ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Control Group ◽  
Sequencing Data ◽  
Competitive Endogenous Rnas ◽  
Competing Endogenous Rnas ◽  
Polymerase Chain

Bipolar disorder (BD) is a severe mood disorder disease in China, and its underlying pathogenesis remains unknown. Circular RNAs (circRNAs) have been reported to play a key role in mental disorders and can be used as competitive endogenous RNAs (ceRNAs). However, little is known about the correlation of circRNAs with BD. In this study, Deep RNA sequencing was used to identify differentially expressed circRNAs (DE-circRNAs) and differentially expressed mRNAs (DE-mRNAs) between BD patients and a control group. Real-time quantitative reverse transcription-polymerase chain reaction (qRT-PCR) was used to validate the differentially expressed RNAs (DE-RNAs). In all 9,593 circRNAs and 20,030 mRNAs were found in the two groups of specimens, among which 50 DE-circRNAs and 244 DE-mRNAs were significantly upregulated, and 44 DE-circRNAs and 294 DE-mRNAs were significantly downregulated. Based on the regulatory mechanism of ceRNAs, circRNAs can directly bind microRNAs (miRNAs) to affect mRNA expression, and the expression trends of circRNAs and mRNAs are consistent. According to this mechanism, we constructed two ceRNA networks by using the RNA sequencing data. The function of these DE-circRNAs was further elucidated by enrichment analysis. In summary, the present study showed that the circRNA expression profile of BD patients is altered, and a ceRNA regulatory network was constructed, which provided a hypothesis about the pathogenesis of BD.

scholarly journals The potential role of hsa_circ_0005505 in the rupture of human intracranial aneurysm

2021 ◽  
Author(s):  
Xin Chen ◽  
Shuzhe Yang ◽  
Junhua Yang ◽  
Qingyuan Liu ◽  
Maogui Li ◽  
...  
Keyword(s):  
Smooth Muscle ◽  
Intracranial Aneurysm ◽  
Vascular Smooth Muscle ◽  
Smooth Muscle Cell ◽  
Muscle Cell ◽  
Intracranial Aneurysms ◽  
Circular Rna ◽  
Circular Rnas ◽  
Ruptured Intracranial Aneurysms

Abstract Background Recently, abundant numbers of studies have revealed many functions of circular RNAs in multiple diseases, however, the role of circular RNA in the rupture of human intracranial aneurysm is still unknown. This study aims to explore the potential functions of circular RNA in the rupture of human intracranial aneurysms. Results The differentially expressed circular RNAs between un-ruptured intracranial aneurysms (n = 5) and ruptured intracranial aneurysms (n = 5) were analyzed with the Arraystar human circRNAs microarray and total of 13175 circular RNAs were detected. Among them 63 circular RNAs upregulated and 54 circular RNAs downregulated significantly in ruptured intracranial aneurysms compared with un-ruptured intracranial aneurysms (p < 0.05, Fold Change > 1.5). 5 upregulated circular RNAs were selected for further study (hsa_circ_0001947, hsa_circ_0043001, hsa_circ_0064557, hsa_circ_0058514, hsa_circ_0005505). The results of qPCR showed only hsa_circ_0005505 significantly upregulated (P < 0.05). The expression of hsa_circ_0005505 was higher in ruptured intracranial aneurysm tissues. And our in vitro data showed that hsa_circRNA_005505 promotes the proliferation the migration and apoptosis of vascular smooth muscle cell. Conclusions This study revealed an important role of hsa_circ_0005505 in the proliferation, migration and apoptosis of vascular smooth muscle cell, and indicated that hsa_circ_0005505 may associated with the pathological process of intracranial aneurysms.

Circular RNA expression profiles in cisplatin-induced acute kidney injury in mice

Epigenomics ◽  
2019 ◽  
Vol 11 (10) ◽  
pp. 1191-1207 ◽  
Author(s):  
Can-Ming Li ◽  
Ming Li ◽  
Zeng-Chun Ye ◽  
Jia-Yan Huang ◽  
Yin Li ◽  
...  
Keyword(s):  
Acute Kidney Injury ◽  
Bioinformatics Analysis ◽  
Expression Profiles ◽  
Kidney Injury ◽  
Circular Rna ◽  
Differentially Expressed ◽  
Cancer Pathways ◽  
Polymerase Chain ◽  
Generation Sequencing

Aim: This study was carried out to identify the expression profile and role of circRNAs in cisplatin-induced acute kidney injury (AKI). Materials & methods: In this study, an AKI model was established in cisplatin-treated mice, and the expression of circRNAs was profiled by next-generation sequencing. The differential expression levels of selected circRNAs were determined by quantitative real-time polymerase chain reaction. Bioinformatics analysis was conducted to predict the functions. Results: In total, 368 circRNAs were detected to be differentially expressed in response to cisplatin treatment. Bioinformatics analysis indicated that the parental genes of the differentially expressed circRNAs were predominantly implicated in the cell and cell part, cellular process and cancer pathways. Conclusion: CircRNAs might be differentially expressed in AKI, which are potentially involved in pathophysiology of cisplatin-induced nephrotoxicity.

scholarly journals Circular RNA expression profile in transgenic diabetic mouse kidneys

2021 ◽  
Vol 26 (1) ◽  
Author(s):  
Xuan Xiong ◽  
Changchun Liu ◽  
Meiren Shen ◽  
Qian Yang ◽  
Qiang Zhao ◽  
...  
Keyword(s):  
Diabetic Nephropathy ◽  
Expression Profile ◽  
Circular Rna ◽  
Diabetic Mouse ◽  
Differentially Expressed ◽  
Circular Rnas ◽  
Diabetic Mice ◽  
Wild Type ◽  
Patients With Diabetes ◽  
Polymerase Chain

Abstract Background Diabetic nephropathy is one of the most important complications in patients with diabetes. The etiology and pathogenesis of diabetic nephropathy remain unclear. Several studies have indicated that circular RNAs (circRNAs) play crucial regulatory roles in numerous human diseases and normal physiology; however, to date, no study has focused on the comprehensive expression profile of circRNAs in the kidneys of diabetic mice. Therefore, we aimed to identify differentially expressed circRNAs in diabetic mouse kidneys to explore the possible roles of dysregulated circRNAs in diabetic nephropathy development. Results Diabetic BKS-Leprem2Cd479/Nju (BKS-DB/Nju) mice and their nondiabetic wild-type littermates of C57BL/KsJ wild-type (WT) mice were used as experimental animals. Among all circRNAs identified by high-throughput RNA sequencing, four circRNAs were upregulated and ten were downregulated in diabetic mouse kidneys compared to those in nondiabetic mouse kidneys. After verification using quantitative reverse transcriptase polymerase chain reaction assays, we found that circR_1084, circR_182, circR_4, circR_50, circR_596, circR_897, and circR_203 were downregulated, whereas circR_627, circR_628, circR_735, and circR_801 were upregulated in the renal tissues of 8- and 16-week-old BKS-DB/Nju mice compared to those in WT mice. Conclusion We studied the circRNA expression profile in the kidneys of diabetic mice. Differentially expressed circRNAs may be useful as candidate biomarkers for diabetic nephropathy. Collectively, our results provide a novel theoretical basis for further investigation of the regulatory roles of circRNA in the etiology and pathogenesis of diabetic nephropathy.

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