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Journal articles on the topic 'Circular RNA - messenger RNA couple'

Author: Grafiati

Published: 30 November 2024

Last updated: 31 July 2025

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1

Dai, Chenyue, Bing Liu, Shaolei Li, et al. "Construction of a circRNA-miRNA-mRNA Regulated Pathway Involved in EGFR-TKI Lung Adenocarcinoma Resistance." Technology in Cancer Research & Treatment 20 (January 2021): 153303382110568. http://dx.doi.org/10.1177/15330338211056809.

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Objectives: Epidermal growth factor receptor-tyrosine kinase inhibitors are widely used for lung epidermal growth factor receptor-positive lung adenocarcinomas, but acquired resistance is inevitable. Although non-coding RNAs, such as circular RNA and microRNA, are known to play vital roles in epidermal growth factor receptor-tyrosine kinase inhibitor resistance, comprehensive analysis is lacking. Thus, this study aimed to explore the circular RNA-microRNA-messenger RNA regulatory network involved in epidermal growth factor receptor-tyrosine kinase inhibitor resistance. Methods: To identify dif

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Peng, Ziqi, Boyang Xu, and Feng Jin. "Circular RNA hsa_circ_0000376 Participates in Tumorigenesis of Breast Cancer by Targeting miR-1285-3p." Technology in Cancer Research & Treatment 19 (January 1, 2020): 153303382092847. http://dx.doi.org/10.1177/1533033820928471.

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This study was designed to identify novel circular RNAs and the related regulatory axis to provide research targets for the diagnosis and treatment of breast cancer. The circular RNA expression microarray “GSE101123” related to breast cancer was downloaded from the Gene Expression Omnibus database. The differentially expressed circular RNAs between tumor and normal samples were screened using Limma package. The targeted microRNAs of the differentially expressed circular RNAs and the targeted messenger RNAs of the microRNAs were predicted using miRanda and miRWalk, respectively, and a circular

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Begliarzade, S. A., R. I. Tamrazov, E. R. Musaev, and C. Wang. "Circular RNA Expression Profile in Cervical Cancer and Construction of the Circular RNA‑MicroRNA‑Messenger RNA Regulatory Network." Creative surgery and oncology 14, no. 2 (2024): 116–26. http://dx.doi.org/10.24060/2076-3093-2024-14-2-116-126.

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Introduction. Cervical cancer (CC) remains the most common cancer in women worldwide. However, effective and specific biomarkers for the diagnosis and prognosis of cervical cancer are yet to be found. In recent years, the potential of circular RNAs (circRNAs) as new diagnostic, prognostic and therapeutic tools has received much attention. The current study involved an in-depth bioinformatics research to explore the circRNA-microRNA (miRNA)-messenger RNA (mRNA) regulatory network in order to identify important molecular processes and biological pathways supposedly associated with CC. Materials

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Xia, Bing, Tao Hong, Xin He, Xinlan Hu, and Yongbo Gao. "A circular RNA derived from MMP9 facilitates oral squamous cell carcinoma metastasis through regulation of MMP9 mRNA stability." Cell Transplantation 28, no. 12 (2019): 1614–23. http://dx.doi.org/10.1177/0963689719875409.

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Emerging evidence demonstrates that dysregulation of circular RNA is linked to tumorigenesis and aggressive progression. However, its role in oral squamous cell carcinoma remains largely uncharacterized. In this study, we identified a novel metastasis-associated circular RNA, circular matrix metalloproteinase 9 (hsa_circ_0001162, a circular RNA derived from matrix metalloproteinase 9), which was remarkably upregulated in oral squamous cell carcinoma and positively correlated with matrix metalloproteinase 9 expression. Patients with high circular matrix metalloproteinase 9 expression were prone

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Hu, Dongpo, and Kangjing Chen. "Construction of a circRNA-miRNA-mRNA regulatory network in glioblastoma multiforme based on bioinformatics analysis." Medicine 104, no. 19 (2025): e42392. https://doi.org/10.1097/md.0000000000042392.

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This study aimed to investigate the functional roles and molecular regulatory mechanisms of circular RNAs in the development of glioblastoma multiforme. Differentially expressed circular RNAs were identified by integrating RNA sequencing data and circular RNA microarray data from the Gene Expression Omnibus database. CircAtlas and CircInteractome databases were used to predict microRNAs (miRNAs) interacting with these circular RNAs. Survival analysis of the miRNAs was performed using data from the Chinese Glioma Genome Atlas. The miRTarBase database was used to predict miRNA target genes, foll

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Rostain, William, Shensi Shen, Teresa Cordero, Guillermo Rodrigo, and Alfonso Jaramillo. "Engineering a Circular Riboregulator in Escherichia coli." BioDesign Research 2020 (September 14, 2020): 1–9. http://dx.doi.org/10.34133/2020/1916789.

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RNAs of different shapes and sizes, natural or synthetic, can regulate gene expression in prokaryotes and eukaryotes. Circular RNAs have recently appeared to be more widespread than previously thought, but their role in prokaryotes remains elusive. Here, by inserting a riboregulatory sequence within a group I permuted intron-exon ribozyme, we created a small noncoding RNA that self-splices to produce a circular riboregulator in Escherichia coli. We showed that the resulting riboregulator can trans-activate gene expression by interacting with a cis-repressed messenger RNA. We characterized the

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Liu, Tao, Guoru Zhang, Yaling Wang, et al. "Identification of Circular RNA-MicroRNA-Messenger RNA Regulatory Network in Atrial Fibrillation by Integrated Analysis." BioMed Research International 2020 (September 29, 2020): 1–13. http://dx.doi.org/10.1155/2020/8037273.

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Background. Circular RNA (circRNA) is a noncoding RNA that forms a closed-loop structure, and its abnormal expression may cause disease. We aimed to find potential network for circRNA-related competitive endogenous RNA (ceRNA) in atrial fibrillation (AF). Methods. The circRNA, miRNA, and mRNA expression profiles in the heart tissue from AF patients were retrieved from the Gene Expression Omnibus database and analyzed comprehensively. Differentially expressed circRNAs (DEcircRNAs), differentially expressed miRNAs (DEmiRNAs), and differentially expressed mRNAs (DEmRNAs) were identified, followed

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Sun, Xiangjun, Xinfeng Ge, Zhiyong Xu, and Dongfeng Chen. "Identification of circular RNA–microRNA–messenger RNA regulatory network in hepatocellular carcinoma by integrated analysis." Journal of Gastroenterology and Hepatology 35, no. 1 (2019): 157–64. http://dx.doi.org/10.1111/jgh.14762.

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9

Song, Yan, Ning Hu, Xiaowei Song, and Juhong Yang. "Hsa_Circ_0007841 Enhances Multiple Myeloma Chemotherapy Resistance Through Upregulating ABCG2." Technology in Cancer Research & Treatment 19 (January 1, 2020): 153303382092837. http://dx.doi.org/10.1177/1533033820928371.

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The current researches have reported that circular RNA is an important regulatory factor in the progression of various human disease. However, the function and mechanism of most circular RNAs remain unknown in cancers including multiple myeloma. Our study has confirmed that hsa_circ_0007841 is up regulated in U266 doxorubicin resistant cells (U266R) and 8226 doxorubicin resistant cells (8226R) compared to U266 parent cells (U266P) and 8226 parent cells (8226P). Silence of hsa_circ_0007841 in U266R and 8226R could reduce the half-maximal inhibitory concentration which indicated reduction in che

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Zhou, Wenshuo, Linglei Jiang, Shimiao Liao, et al. "Vaccines’ New Era-RNA Vaccine." Viruses 15, no. 8 (2023): 1760. http://dx.doi.org/10.3390/v15081760.

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RNA vaccines, including conventional messenger RNA (mRNA) vaccines, circular RNA (circRNA) vaccines, and self-amplifying RNA (saRNA) vaccines, have ushered in a promising future and revolutionized vaccine development. The success of mRNA vaccines in combating the COVID-19 pandemic caused by the SARS-CoV-2 virus that emerged in 2019 has highlighted the potential of RNA vaccines. These vaccines possess several advantages, such as high efficacy, adaptability, simplicity in antigen design, and the ability to induce both humoral and cellular immunity. They also offer rapid and cost-effective manufa

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Aquilina-Reid, Chiara, Samuel Brennan, Ashton Curry-Hyde, Guus M. Teunisse, and Michael Janitz. "Circular RNA Expression and Interaction Patterns Are Perturbed in Amyotrophic Lateral Sclerosis." International Journal of Molecular Sciences 23, no. 23 (2022): 14665. http://dx.doi.org/10.3390/ijms232314665.

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Circular RNAs (circRNAs) are a type of long noncoding RNA that are highly abundant and highly conserved throughout evolution and exhibit differential expression patterns in various tissue types in multiple diseases, including amyotrophic lateral sclerosis (ALS). The most well-known function of circRNAs is their ability to act as microRNA (miRNA) sponges. This entails circRNA binding to miRNA, which would otherwise target and degrade messenger RNA, thus affecting gene expression. This study analyzed ALS patient samples from three spinal cord regions to investigate circular transcriptome perturb

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Kabzinski, Jacek, Aleksandra Kucharska-Lusina, and Ireneusz Majsterek. "RNA-Based Liquid Biopsy in Head and Neck Cancer." Cells 12, no. 14 (2023): 1916. http://dx.doi.org/10.3390/cells12141916.

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Head and neck cancer (HNC) is a prevalent and diverse group of malignancies with substantial morbidity and mortality rates. Early detection and monitoring of HNC are crucial for improving patient outcomes. Liquid biopsy, a non-invasive diagnostic approach, has emerged as a promising tool for cancer detection and monitoring. In this article, we review the application of RNA-based liquid biopsy in HNC. Various types of RNA, including messenger RNA (mRNA), microRNA (miRNA), long non-coding RNA (lncRNA), small nuclear RNA (snRNA), small nucleolar RNA (snoRNA), circular RNA (circRNA) and PIWI-inter

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Rybak-Wolf, Agnieszka, and Mireya Plass. "RNA Dynamics in Alzheimer’s Disease." Molecules 26, no. 17 (2021): 5113. http://dx.doi.org/10.3390/molecules26175113.

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Alzheimer’s disease (AD) is the most common age-related neurodegenerative disorder that heavily burdens healthcare systems worldwide. There is a significant requirement to understand the still unknown molecular mechanisms underlying AD. Current evidence shows that two of the major features of AD are transcriptome dysregulation and altered function of RNA binding proteins (RBPs), both of which lead to changes in the expression of different RNA species, including microRNAs (miRNAs), circular RNAs (circRNAs), long non-coding RNAs (lncRNAs), and messenger RNAs (mRNAs). In this review, we will cond

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Gao, Mengjia, Jingxin Xin, Xiaoling Li, Ling Gao, Shanshan Shao, and Meng Zhao. "Differential Expression Profiles of mRNA and Noncoding RNA and Analysis of Competitive Endogenous RNA Regulatory Networks in Nonalcoholic Steatohepatitis." Gastroenterology Research and Practice 2022 (July 7, 2022): 1–13. http://dx.doi.org/10.1155/2022/3200932.

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Nonalcoholic steatohepatitis (NASH) is a liver disease caused by multiple factors, and there is no approved pharmacotherapy. The pathogenesis of NASH remains underexplored. In this study, differentially expressed circular RNAs (circRNAs) were obtained by analyzing NASH-related circRNA datasets, and then, corresponding target microRNAs (miRNAs) and messenger RNAs (mRNAs) were predicted to construct a circRNA–miRNA–mRNA regulatory network. On this basis, a total of 38 circRNAs, 7 miRNAs, and 10 mRNAs were screened out. The present study reveals novel circRNA biomarkers of NASH and reports a pote

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Ward, Zoe, Sebastian Schmeier, John Pearson, et al. "Identifying Candidate Circulating RNA Markers for Coronary Artery Disease by Deep RNA-Sequencing in Human Plasma." Cells 11, no. 20 (2022): 3191. http://dx.doi.org/10.3390/cells11203191.

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Advances in RNA sequencing (RNA-Seq) have facilitated transcriptomic analysis of plasma for the discovery of new diagnostic and prognostic markers for disease. We aimed to develop a short-read RNA-Seq protocol to detect mRNAs, long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) in plasma for the discovery of novel markers for coronary artery disease (CAD) and heart failure (HF). Circulating cell-free RNA from 59 patients with stable CAD (half of whom developed HF within 3 years) and 30 controls was sequenced to a median depth of 108 paired reads per sample. We identified fragments from

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Nadir, Khan1 Farzeen Shaba2 Abu Sehma3 Mohd Faizan4 Rumana Siddqui5 Dr. Mohd Abid6*. "A Comprehensive Review About Exploring the Functional Diversity, Structural Complexity, And Interconnectivity of RNA Molecules: Implications for Gene Regulation, Cellular Processes, And Therapeutic Innovations." International Journal of Pharmaceutical Sciences 3, no. 5 (2025): 2171–80. https://doi.org/10.5281/zenodo.15398199.

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RNA (ribonucleic acid) is a versatile biomolecule that plays fundamental roles in gene expression, protein synthesis, and cellular regulation. Beyond its well-known functions in transcription and translation, RNA participates in various regulatory and structural processes essential for maintaining cellular homeostasis. This review explores the diversity of RNA molecules, including messenger RNA (mRNA), transfer RNA (tRNA), ribosomal RNA (rRNA), and non-coding RNAs such as small nuclear RNA (snRNA), microRNA (miRNA), small interfering RNA (siRNA), long non-coding RNA (lncRNA), circular RNA (cir

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Owens, Robert A., Kimberly B. Tech, Jonathan Y. Shao, Teruo Sano, and C. Jacyn Baker. "Global Analysis of Tomato Gene Expression During Potato spindle tuber viroid Infection Reveals a Complex Array of Changes Affecting Hormone Signaling." Molecular Plant-Microbe Interactions® 25, no. 4 (2012): 582–98. http://dx.doi.org/10.1094/mpmi-09-11-0258.

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Viroids like Potato spindle tuber viroid (PSTVd) are the smallest known agents of infectious disease—small, highly structured, circular RNA molecules that lack detectable messenger RNA activity, yet are able to replicate autonomously in susceptible plant species. To better understand the possible role of RNA silencing in disease induction, a combination of microarray analysis and large-scale RNA sequence analysis was used to compare changes in tomato gene expression and microRNA levels associated with PSTVd infection in two tomato cultivars plus a third transformed line expressing small PSTVd

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Zhu, Zirui, Rui Huang, and Baojun Huang. "Predicting functional circular RNA-based competitive endogenous RNA network in gastric carcinoma using novel bioinformatics analysis." Experimental Biology and Medicine 247, no. 2 (2021): 131–44. http://dx.doi.org/10.1177/15353702211048757.

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Gastric cancer (GC) remains one of the most prevalent types of malignancies worldwide, and also one of the most reported lethal tumor-related diseases. Circular RNAs (circRNAs) have been certified to be trapped in multiple aspects of GC pathogenesis. Yet, the mechanism of this regulation is mostly undefined. This research is designed to discover the vital circRNA-microRNA (miRNA)-messenger RNA (mRNA) regulatory network in GC. Expression profiles with diverse levels including circRNAs, miRNAs, and mRNAs were all determined using microarray public datasets from Gene Expression Ominous (GEO). The

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Li, Yongwen, Ruifeng Shi, Guangsheng Zhu, et al. "Construction of a circular RNA – microRNA –messenger RNA regulatory network of hsa_circ_0043256 in lung cancer by integrated analysis." Thoracic Cancer 13, no. 1 (2021): 61–75. http://dx.doi.org/10.1111/1759-7714.14226.

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Gomes, Clarissa Pedrosa da Costa, Blanche Schroen, Gabriela M. Kuster, et al. "Regulatory RNAs in Heart Failure." Circulation 141, no. 4 (2020): 313–28. http://dx.doi.org/10.1161/circulationaha.119.042474.

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Cardiovascular disease is an enormous socioeconomic burden worldwide and remains a leading cause of mortality and disability despite significant efforts to improve treatments and personalize healthcare. Heart failure is the main manifestation of cardiovascular disease and has reached epidemic proportions. Heart failure follows a loss of cardiac homeostasis, which relies on a tight regulation of gene expression. This regulation is under the control of multiple types of RNA molecules, some encoding proteins (the so-called messenger RNAs) and others lacking protein-coding potential, named noncodi

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Harland, R., and L. Misher. "Stability of RNA in developing Xenopus embryos and identification of a destabilizing sequence in TFIIIA messenger RNA." Development 102, no. 4 (1988): 837–52. http://dx.doi.org/10.1242/dev.102.4.837.

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Synthetic capped RNA transcripts injected into fertilized eggs of Xenopus laevis have a half-life of 3–4 h. Addition of a long (approximately 200 nucleotide) poly(A) tail increases the half-life to 6–8 h which approaches the half-life of natural polyadenylated globin RNA injected into embryos. Since exonucleolytic action alone could account for the degradation of RNA, we tested whether circular RNA is stable after injection and find that circles are exceptionally stable (half-life greater than 40 h). After the midblastula transition, polyadenylated chloramphenicol transferase (CAT) mRNAs trans

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Sen, Rituparno, Suman Ghosal, Shaoli Das, Subrata Balti, and Jayprokas Chakrabarti. "Competing Endogenous RNA: The Key to Posttranscriptional Regulation." Scientific World Journal 2014 (2014): 1–6. http://dx.doi.org/10.1155/2014/896206.

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Competing endogenous RNA, ceRNA, vie with messenger RNAs (mRNAs) for microRNAs (miRNAs) with shared miRNAs responses elements (MREs) and act as modulator of miRNA by influencing the available level of miRNA. It has recently been discovered that, apart from protein-coding ceRNAs, pseudogenes, long noncoding RNAs (lncRNAs), and circular RNAs act as miRNA “sponges” by sharing common MRE, inhibiting normal miRNA targeting activity on mRNA. These MRE sharing elements form the posttranscriptional ceRNA network to regulate mRNA expression. ceRNAs are widely implicated in many biological processes. Re

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Liu, Xiang. "Abstract 847: Small circular RNA for cancer immunotherapy." Cancer Research 85, no. 8_Supplement_1 (2025): 847. https://doi.org/10.1158/1538-7445.am2025-847.

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Abstract Introduction: Messenger RNA (mRNA) has emerged as a novel vaccine platform and has proven highly effective during the pandemic. This platform had also found application in the development of cancer vaccines. Despite the encouraging outcomes observed in early-phase clinical trials, certain concerns are still associated with current mRNA-based cancer vaccines such as limited stability, suboptimal tumor therapy potency and durability, and limited safety. Here, we report novel highly stable antigen-encoding small circular mRNA (circRNA) vaccines that elicit potent and durable T cell respo

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Vučković, Ana, Christoph Freyer, Anna Wredenberg, and Hauke S. Hillen. "The molecular machinery for maturation of primary mtDNA transcripts." Human Molecular Genetics 33, R1 (2024): R19—R25. http://dx.doi.org/10.1093/hmg/ddae023.

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Abstract Human mitochondria harbour a circular, polyploid genome (mtDNA) encoding 11 messenger RNAs (mRNAs), two ribosomal RNAs (rRNAs) and 22 transfer RNAs (tRNAs). Mitochondrial transcription produces long, polycistronic transcripts that span almost the entire length of the genome, and hence contain all three types of RNAs. The primary transcripts then undergo a number of processing and maturation steps, which constitute key regulatory points of mitochondrial gene expression. The first step of mitochondrial RNA processing consists of the separation of primary transcripts into individual, fun

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Yeh, Shih-Chia, Faith J. F. Cheong, and Yvonne Tay. "Circular RNAs And Untranslated Regions in Acute Myeloid Leukemia." International Journal of Molecular Sciences 24, no. 4 (2023): 3215. http://dx.doi.org/10.3390/ijms24043215.

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Before the advent of next-generation sequencing, research on acute myeloid leukemia (AML) mostly centered on protein-coding genes. In recent years, breakthroughs in RNA sequencing technologies and whole transcriptome analysis have led to the discovery that approximately 97.5% of the human genome is transcribed into non-coding RNAs (ncRNAs). This paradigm shift has led to an explosion of research interest in different classes of non-coding RNAs, such as circular RNAs (circRNAs) as well as non-coding untranslated regions (UTRs) of protein-coding messenger RNAs. The critical roles of circRNAs and

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Gu, Rui, Xiaodong Li, Xiaowei Yan, Zhen Feng, and Aixin Hu. "Circular RNA circ_0032462 Enhances Osteosarcoma Cell Progression by Promoting KIF3B Expression." Technology in Cancer Research & Treatment 19 (January 1, 2020): 153303382094321. http://dx.doi.org/10.1177/1533033820943217.

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Circular RNAs are a recently discovered subclass of endogenous noncoding RNAs that have been confirmed to play an important role in various pathophysiological processes. However, the underlying function of circular RNAs in osteosarcoma still remains unclear. We aimed to comprehend the function of circ_0032462 in osteosarcoma, as it has been predicted to be highly expressed in osteosarcoma cells. Using real-time polymerase chain reaction, we verified the elevated expression of circ_0032462 in osteosarcoma cells than normal cells. Functional validation experiments revealed that circ_0032462 over

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Yukseloglu, Emel. "RNA-Approached technology applications in forensic genetics." Novel Forensic Research 1, no. 1 (2022): 10. http://dx.doi.org/10.5455/nofor.2022.06.01.

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Ribonucleic acid (RNA) is a nucleic acid which is structurally different from DNA. DNA is the most used and approved nucleic acid in routine applications in forensic caseworks. In this article, giving an information about which RNA types are chosen for which forensic applications is aimed. RNA technologies are developing in the concept of forensic genetics and they can be adapted into routine case works in the case of well conditions are supplied. Both coding and non-coding RNAs are investigated for forensic purposes and most examined ones are messenger RNAs, and microRNAs. There are some rese

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Zhang, Yingjie, Chenyang Huang, Mengran Zhao, et al. "Whole-Transcriptome Sequencing Reveals That mRNA and ncRNA Levels Correlate with Pleurotus cornucopiae Color Formation." Horticulturae 10, no. 1 (2024): 60. http://dx.doi.org/10.3390/horticulturae10010060.

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Pleurotus cornucopiae cap color is an important commercial trait. The roles of non-coding RNA molecules (ncRNAs) in fungal fruiting body color formation are unclear. Whole-transcriptome analyses were performed, identifying messenger RNA (mRNA) and ncRNA (including long stranded non-coding RNA (lncRNA), micro RNA-like (milRNA), and circular RNA (circRNA)) molecules in three P. cornucopiae strains with different cap colors (grayish-black, grayish-white, and white), to investigate their roles in cap color formation. Differentially expressed mRNAs (n = 3604), lncRNAs (n = 520), milRNAs (n = 56), a

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Huang, Rongrong, Yuan Zhang, Ying Bai, et al. "N6-Methyladenosine Modification of Fatty Acid Amide Hydrolase Messenger RNA in Circular RNA STAG1–Regulated Astrocyte Dysfunction and Depressive-like Behaviors." Biological Psychiatry 88, no. 5 (2020): 392–404. http://dx.doi.org/10.1016/j.biopsych.2020.02.018.

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Wu, Yueh-Lin, Hsiao-Fen Li, Hsi-Hsien Chen, and Heng Lin. "Emergent Roles of Circular RNAs in Metabolism and Metabolic Disorders." International Journal of Molecular Sciences 23, no. 3 (2022): 1032. http://dx.doi.org/10.3390/ijms23031032.

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Circular RNAs (circRNAs) are an emerging group of long non-coding RNAs (lncRNAs) and have attracted attention again according to the progress in high-throughput sequencing in recent years. circRNAs are genome transcripts produced from pre-messenger (m)RNA regions in a specific process called “back-splicing,” which forms covalently closed continuous loops. Due to their lack of a 5’ cap and 3’ poly-adenylated tails, circRNAs are remarkably more stable than linear RNAs. Functionally, circRNAs can endogenously sponge to microRNAs, interact with RNA-binding proteins (RBPs), or translate themselves.

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Ren, Yi, Thamizhanban Manoharan, Beijia Liu, et al. "Circular RNA as a source of neoantigens for cancer vaccines." Journal for ImmunoTherapy of Cancer 12, no. 3 (2024): e008402. http://dx.doi.org/10.1136/jitc-2023-008402.

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BackgroundThe effectiveness of somatic neoantigen-based immunotherapy is often hindered by the limited number of mutations in tumors with low to moderate mutation burden. Focusing on microsatellite-stable colorectal cancer (CRC), this study investigates the potential of tumor-associated circular RNAs (circRNAs) as an alternative source of neoepitopes in CRC.MethodsTumor-associated circRNAs in CRC were identified using the MiOncoCirc database and ribo-depletion RNA sequencing of paired clinical normal and tumor samples. Candidate circRNA expression was validated by quantitative real-time PCR (R

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Zhu, Weihua, Yuanting Zhang, Qianqian Zhou, Cheng Zhen, Herong Huang, and Xiaoying Liu. "Identification and Comprehensive Analysis of circRNA-miRNA-mRNA Regulatory Networks in A2780 Cells Treated with Resveratrol." Genes 15, no. 7 (2024): 965. http://dx.doi.org/10.3390/genes15070965.

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Ovarian cancer (OC) is one of the most commonplace gynecological malignancies. This study explored the effects of resveratrol (RES) on OC cell proliferation and apoptosis. Proliferation activity was measured for A2780 cells treated with RES for 24 h and 48 h at concentrations of 0, 10, 25, 50, 75, 100, 150, 200, and 300 μM. RNA sequencing (RNA-seq) was performed to analyze the circular RNA (circRNA), microRNA (miRNA), and messenger RNA (mRNA) expression spectrum. The differentially expressed genes included 460 circRNAs, 1988 miRNAs, and 1671 mRNAs, and they were subjected to analyses including

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Papaioannou, Dimitrios, Stefano Volinia, Deedra Nicolet, et al. "Clinical and functional significance of circular RNAs in cytogenetically normal AML." Blood Advances 4, no. 2 (2020): 239–51. http://dx.doi.org/10.1182/bloodadvances.2019000568.

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Abstract Circular RNAs (circRNAs) are noncoding RNA molecules that display a perturbed arrangement of exons, called backsplicing. To examine the prognostic and biologic significance of circRNA expression in cytogenetically normal acute myeloid leukemia (CN-AML), we conducted whole-transcriptome profiling in 365 younger adults (age 18-60 years) with CN-AML. We applied a novel pipeline, called Massive Scan for circRNA, to identify and quantify circRNA expression. We validated the high sensitivity and specificity of our pipeline by performing RNase R treatment and RNA sequencing in samples of AML

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Filippenkov, Ivan B., Vasily V. Stavchansky, Alina E. Denisova, et al. "Genome-Wide RNA-Sequencing Reveals Massive Circular RNA Expression Changes of the Neurotransmission Genes in the Rat Brain after Ischemia–Reperfusion." Genes 12, no. 12 (2021): 1870. http://dx.doi.org/10.3390/genes12121870.

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Ischemic brain stroke is one of the most serious and socially significant diseases. In addition to messenger RNAs (mRNAs), encoding protein, the study of regulatory RNAs in ischemic has exceptional importance for the development of new strategies for neuroprotection. Circular RNAs (circRNAs) have a closed structure, predominantly brain-specific expression, and remain highly promising targets of research. They can interact with microRNAs (miRNAs), diminish their activity and thereby inhibit miRNA-mediated repression of mRNA. Genome-wide RNA-Seq analysis of the subcortical structures of the rat

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He, Ningning, Yuxiao Sun, Mengmeng Yang, et al. "Analysis of Circular RNA Expression Profile in HEK 293T Cells Exposed to Ionizing Radiation." Dose-Response 17, no. 2 (2019): 155932581983779. http://dx.doi.org/10.1177/1559325819837795.

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Radiation therapy is one of the most common cancer treatments. It is important to understand how cells respond to ionizing radiation (IR) to improve therapeutic efficacy. Circular RNAs (circRNAs) recently have been found to regulate a variety of cellular processes. However, it is poorly defined that their expression pattern and their identity in cells following IR exposure. Here, we performed high-throughput sequencing and comprehensive analysis of circRNA expression in human embryonic kidney (HEK) 293T cells before and after irradiation. We identified totally 5592 circRNAs and discovered 1038

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Urdánoz-Casado, Amaya, Javier Sánchez-Ruiz de Gordoa, Maitane Robles, et al. "Gender-Dependent Deregulation of Linear and Circular RNA Variants of HOMER1 in the Entorhinal Cortex of Alzheimer’s Disease." International Journal of Molecular Sciences 22, no. 17 (2021): 9205. http://dx.doi.org/10.3390/ijms22179205.

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The HOMER1 gene is involved in synaptic plasticity, learning and memory. Recent studies show that circular RNA derived from HOMER1 (circHOMER1) expression is altered in some Alzheimer’s disease (AD) brain regions. In addition, HOMER1 messenger (mRNA) levels have been associated with β-Amyloid (Aβ) deposits in brain cortical regions. Our aim was to measure the expression levels of HOMER1 circRNAs and their linear forms in the human AD entorhinal cortex. First, we showed downregulation of HOMER1B/C and HOMER1A mRNA and hsa_circ_0006916 and hsa_circ_0073127 levels in AD female cases compared to c

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Ravnik-Glavač, Metka, and Damjan Glavač. "Circulating RNAs as Potential Biomarkers in Amyotrophic Lateral Sclerosis." International Journal of Molecular Sciences 21, no. 5 (2020): 1714. http://dx.doi.org/10.3390/ijms21051714.

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Amyotrophic lateral sclerosis (ALS) is a complex multi-system neurodegenerative disorder with currently limited diagnostic and no therapeutic options. Despite the intense efforts no clinically applicable biomarkers for ALS are yet established. Most current research is thus focused, in particular, in identifying potential non-invasive circulating biomarkers for more rapid and accurate diagnosis and monitoring of the disease. In this review, we have focused on messenger RNA (mRNA), non-coding RNAs (lncRNAs), micro RNAs (miRNAs) and circular RNA (circRNAs) as potential biomarkers for ALS in perip

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del Solar, Gloria, Rafael Giraldo, María Jesús Ruiz-Echevarría, Manuel Espinosa, and Ramón Díaz-Orejas. "Replication and Control of Circular Bacterial Plasmids." Microbiology and Molecular Biology Reviews 62, no. 2 (1998): 434–64. http://dx.doi.org/10.1128/mmbr.62.2.434-464.1998.

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SUMMARY An essential feature of bacterial plasmids is their ability to replicate as autonomous genetic elements in a controlled way within the host. Therefore, they can be used to explore the mechanisms involved in DNA replication and to analyze the different strategies that couple DNA replication to other critical events in the cell cycle. In this review, we focus on replication and its control in circular plasmids. Plasmid replication can be conveniently divided into three stages: initiation, elongation, and termination. The inability of DNA polymerases to initiate de novo replication makes

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Miladi, Milad, Martin Raden, Sven Diederichs, and Rolf Backofen. "MutaRNA: analysis and visualization of mutation-induced changes in RNA structure." Nucleic Acids Research 48, W1 (2020): W287—W291. http://dx.doi.org/10.1093/nar/gkaa331.

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Abstract RNA molecules fold into complex structures as a result of intramolecular interactions between their nucleotides. The function of many non-coding RNAs and some cis-regulatory elements of messenger RNAs highly depends on their fold. Single-nucleotide variants (SNVs) and other types of mutations can disrupt the native function of an RNA element by altering its base pairing pattern. Identifying the effect of a mutation on an RNA’s structure is, therefore, a crucial step in evaluating the impact of mutations on the post-transcriptional regulation and function of RNAs within the cell. Even

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Lu, Jianan, Yujie Luo, Shuhao Mei, Yuanjian Fang, Jianmin Zhang, and Sheng Chen. "The Effect of Melatonin Modulation of Non-coding RNAs on Central Nervous System Disorders: An Updated Review." Current Neuropharmacology 19, no. 1 (2020): 3–23. http://dx.doi.org/10.2174/1570159x18666200503024700.

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: Melatonin is a hormone produced in and secreted by the pineal gland. Besides its role in regulating circadian rhythms, melatonin has a wide range of protective functions in the central nervous system (CNS) disorders. The mechanisms underlying this protective function are associated with the regulatory effects of melatonin on related genes and proteins. In addition to messenger ribonucleic acid (RNA) that can be translated into protein, an increasing number of non-coding RNAs in the human body are proven to participate in many diseases. This review discusses the current progress of research o

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Lai, Hongyan, Yuchen Li, Hena Zhang, et al. "exoRBase 2.0: an atlas of mRNA, lncRNA and circRNA in extracellular vesicles from human biofluids." Nucleic Acids Research 50, no. D1 (2021): D118—D128. http://dx.doi.org/10.1093/nar/gkab1085.

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Abstract Extracellular vesicles (EVs) are small membranous vesicles that contain an abundant cargo of different RNA species with specialized functions and clinical implications. Here, we introduce an updated online database (http://www.exoRBase.org), exoRBase 2.0, which is a repository of EV long RNAs (termed exLRs) derived from RNA-seq data analyses of diverse human body fluids. In exoRBase 2.0, the number of exLRs has increased to 19 643 messenger RNAs (mRNAs), 15 645 long non-coding RNAs (lncRNAs) and 79 084 circular RNAs (circRNAs) obtained from ∼1000 human blood, urine, cerebrospinal flui

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Pisanu, Claudia, and Alessio Squassina. "RNA Biomarkers in Bipolar Disorder and Response to Mood Stabilizers." International Journal of Molecular Sciences 24, no. 12 (2023): 10067. http://dx.doi.org/10.3390/ijms241210067.

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Bipolar disorder (BD) is a severe chronic disorder that represents one of the main causes of disability among young people. To date, no reliable biomarkers are available to inform the diagnosis of BD or clinical response to pharmacological treatment. Studies focused on coding and noncoding transcripts may provide information complementary to genome-wide association studies, allowing to correlate the dynamic evolution of different types of RNAs based on specific cell types and developmental stage with disease development or clinical course. In this narrative review, we summarize findings from h

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Vashchenko, Vladimir I., Alexey B. Chuklovin, and Petr D. Shabanov. "Circular RNAs in eukaryotic cells: origin, characteristics, mechanisms of molecular functioning in human malignant diseases." Reviews on Clinical Pharmacology and Drug Therapy 20, no. 4 (2023): 335–84. http://dx.doi.org/10.17816/rcf204335-384.

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Circular RNAs (circRNAs) are an evolutionarily conserved novel class of non-coding endogenous RNAs (ncRNAs) found in the eukaryotic transcriptome, originally believed to be aberrant RNA splicing by-products with limited functionality. However, recent advances in highthroughput genomic technology have allowed circRNAs to be characterized in detail and revealed their important functions in controlling various biological and molecular processes, the most essential being gene regulation. Due to structural stability, high expression, availability of microRNA (miRNA) binding sites and tissue-s

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Sun, Xiulian, Sheng Zhao, and Wei Wang. "RNA-Lnp-Mediated CAR-T Cell Manufacturing: A Paradigm Shift in Precision Immunotherapy." Blood 144, Supplement 1 (2024): 2097. https://doi.org/10.1182/blood-2024-204121.

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The landscape of cancer treatment is being revolutionized by the advent of chimeric antigen receptor T (CAR-T) cell therapies, which harness the power of the immune system to target and eliminate cancer cells. Despite their remarkable therapeutic potential, the production of CAR-T cells remains a complex and personalized process, fraught with challenges such as genetic modification risks, manufacturing inefficiencies, and the need for scalable solutions. This study introduces a novel RNA-lipid nanoparticle (RNA-LNP) technology for the efficient and safe delivery of therapeutic RNAs, including

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Gao, Zheng-Rong, Qiong Liu, Jie Zhao, et al. "A comprehensive analysis of the circRNA–miRNA–mRNA network in osteocyte-like cell associated with Mycobacterium leprae infection." PLOS Neglected Tropical Diseases 16, no. 5 (2022): e0010379. http://dx.doi.org/10.1371/journal.pntd.0010379.

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Background Bone formation and loss are the characteristic clinical manifestations of leprosy, but the mechanisms underlying the bone remodeling with Mycobacterium leprae (M. leprae) infection are unclear. Methodology/Principal findings Osteocytes may have a role through regulating the differentiation of osteogenic lineages. To investigate osteocyte-related mechanisms in leprosy, we treated osteocyte-like cell with N-glycosylated muramyl dipeptide (N.g MDP). RNA-seq analysis showed 724 differentially expressed messenger RNAs (mRNAs) and 724 differentially expressed circular RNA (circRNAs). Of t

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D’Anna, Luisa, Aurane Froux, Aurianne Rainot, et al. "Resolving the Structure of a Guanine Quadruplex in TMPRSS2 Messenger RNA by Circular Dichroism and Molecular Modeling." Chemistry – A European Journal, October 4, 2024. http://dx.doi.org/10.1002/chem.202403572.

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The presence of a guanine quadruplex in the opening reading frame of the messenger RNA coding for the transmembrane serine protease 2 (TMPRSS2) may pave the way to original anticancer and host‐oriented antiviral strategy. Indeed, TMPRSS2 in addition to being overexpressed in different cancer types, is also related to the infection of respiratory viruses, including SARS‐CoV‐2, by promoting the cellular and viral membrane fusion through its proteolytic activity. The design of selective ligands targeting TMPRSS2 messenger RNA requires a detailed knowledge, at atomic level, of its structure. There

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Chen, Robert, Sean K. Wang, Julia A. Belk, et al. "Engineering circular RNA for enhanced protein production." Nature Biotechnology, July 18, 2022. http://dx.doi.org/10.1038/s41587-022-01393-0.

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AbstractCircular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5′ and 3′ untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machi

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He, Guo-dong, Shuo Sun, and Yu-qing Huang. "Association of Circulating, Inflammatory Response Exosomal Long RNAs with Ischemic Stroke." Frontiers in Bioscience-Landmark 30, no. 2 (2025). https://doi.org/10.31083/fbl25355.

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Background: The expression profiles and function of exosomal long RNAs (exoLRs) in ischemic stroke remain unknown. This study aimed to investigate the pathophysiologic responses reflected by exoLRs. Methods: The expression profile of exosomal messenger RNA, long non-coding RNA and circular RNA in 9 patients with ischemic stroke and 12 healthy individuals were analyzed by sequencing. We assessed the immune cell landscape to reveal the pathophysiologic responses reflected by exoLRs and performed biological process and pathway enrichment analyses. Competing endogenous RNA networks were constructe

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Tang, Qi, Dan Liao, and Binglian Zheng. "DBR1 orchestrates the fate of lariat RNA: debranching-dependent turnover and function." Nucleic Acids Research 53, no. 13 (2025). https://doi.org/10.1093/nar/gkaf639.

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Abstract Lariat RNA, formed from excised introns during RNA splicing, is produced in molar amounts equal to mature messenger RNAs. As most genes contain introns in higher eukaryotes, lariat RNAs are inevitably generated and exhibit sequence diversity during gene expression. In general, lariat RNA is specifically debranched by the RNA debranching enzyme DBR1, followed by exonuclease-mediated degradation. DBR1 is the sole enzyme responsible for lariat RNA turnover. The recognition and debranching of lariat RNA by DBR1 is completely dependent on the existence of the branch structure with a 2′–5′

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Du, Yifei, Philipp Konrad Zuber, Huajuan Xiao, Xueyan Li, Yuliya Gordiyenko, and V. Ramakrishnan. "Efficient circular RNA synthesis for potent rolling circle translation." Nature Biomedical Engineering, December 13, 2024. https://doi.org/10.1038/s41551-024-01306-3.

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AbstractCircular RNA (circRNA) is a candidate for next-generation messenger RNA therapeutics owing to its remarkable stability. Here we describe trans-splicing-based methods for the synthesis of circRNAs over 8,000 nucleotides. The methods are independent of bacterial sequences, outperform the permuted intron–exon method and allow for the incorporation of RNA modifications. The resulting unmodified circRNAs, which incorporate sequences from human 28S ribosomal RNA, display low immunogenicity and are translated more efficiently than permuted intron–exon-derived circRNAs. Additionally, by using

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