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Defining the landscape of circRNAs in non-small cell lung cancer and their potential as liquid biopsy biomarkers: a complete review including current methods

Carlos Pedraz-Valdunciel, Rafael Rosell
2021 Extracellular Vesicles and Circulating Nucleic Acids  
Circular RNAs (circRNAs) are a re-discovered type of RNAs featuring stable structure and high tissue-specific expression.  ...  Further investigation is warranted to assess the value of EV-and platelet-derived circRNAs as liquid biopsy-based readouts for lung cancer detection.  ...  Acknowledgments We would like to thank Stephanie Davis for language editing assistance, and Dr. Cristina Aguado-Esteban for her deep insights. Figure 1 created with BioRender.com.  ... 
doi:10.20517/evcna.2020.07 fatcat:bfjrciy7drhydmzlkxldlp3kje

riboCIRC: a comprehensive database of translatable circRNAs

Huihui Li, Mingzhe Xie, Yan Wang, Ludong Yang, Zhi Xie, Hongwei Wang
2021 Genome Biology  
AbstractriboCIRC is a translatome data-oriented circRNA database specifically designed for hosting, exploring, analyzing, and visualizing translatable circRNAs from multi-species.  ...  It represents a valuable resource for the circRNA research community and is publicly available at http://www.ribocirc.com.  ...  Acknowledgements We would like to thank our team members Congying Chen and Liang Yi for their assistance in collecting translated circRNAs.  ... 
doi:10.1186/s13059-021-02300-7 pmid:33685493 pmcid:PMC7938571 fatcat:lq6xhbdy2fdm3exbbbrcs7brbq

Genome-Wide Identification of Circular RNAs Revealed the Dominant Intergenic Region Circularization Model in Apostichopus japonicus

Xuelin Zhao, Xuemei Duan, Jianping Fu, Yina Shao, Weiwei Zhang, Ming Guo, Chenghua Li
2019 Frontiers in Genetics  
Circular RNAs (circRNAs) were recently recognized to act as competing endogenous RNAs and play roles in gene expression regulation.  ...  A total of 3,592 circRNAs were identified in libraries with diversified circularization patterns compared with animal models.  ...  All the circRNAs can be shown by visualization tools to see their locations and expressions intuitively (Supplementary Figure S3) .  ... 
doi:10.3389/fgene.2019.00603 pmid:31312211 pmcid:PMC6614181 fatcat:ubwnd4nuhff2vmvanyjdpcuvfa

Warburg effect-promoted exosomal circ_0072083 releasing up-regulates NANGO expression through multiple pathways and enhances temozolomide resistance in glioma

Chenyu Ding, Xuehan Yi, Xiangrong Chen, Zanyi Wu, Honghai You, Xiaoyong Chen, Gaoqi Zhang, Yong Sun, Xingyao Bu, Xiyue Wu, Zhangya Lin, Jianjun Gu (+2 others)
2021 Journal of Experimental & Clinical Cancer Research  
Exosome can carry circular RNAs (circRNAs) to regulate drug resistance via sponging microRNAs (miRNAs). miRNAs can control mRNA expression by regulate the interaction with 3'UTR and methylation.  ...  Exosomal circ_0072083 level was enhanced in resistant patients, and it had a diagnostic value and indicated a lower overall survival in glioma.  ...  Acknowledgements The authors thank all members for assistance in various aspects of this work. Authors' contributions GJJ and DCY designed the study, analyzed the data, and wrote the manuscript.  ... 
doi:10.1186/s13046-021-01942-6 pmid:33975615 pmcid:PMC8111743 fatcat:yc7o53ox4zhphayr3n3lyi3pdq

riboCIRC: a comprehensive database of translatable circRNAs [article]

Huihui Li, Mingzhe Xie, Yan Wang, Ludong Yang, Zhi Xie, Hongwei Wang
2021 bioRxiv   pre-print
AbstractriboCIRC is a translatome data-oriented circRNA database specifically designed for hosting, exploring, analyzing, and visualizing translatable circRNAs from multi-species.  ...  It represents a valuable resource for the circRNA research community and is publicly available at http://www.ribocirc.com.  ...  Acknowledgments We would like to thank our team members Congying Chen and Liang Yi for their assistance in collecting translated circRNAs.  ... 
doi:10.1101/2021.03.03.433665 fatcat:ypqq6qurmnhptmoq4msomolaam

Function of Circular RNAs in Fish and Their Potential Application as Biomarkers

Golam Rbbani, Artem Nedoluzhko, Jorge Galindo-Villegas, Jorge M. O. Fernandes
2021 International Journal of Molecular Sciences  
Circular RNAs (circRNAs) are an emerging class of regulatory RNAs with a covalently closed-loop structure formed during pre-mRNA splicing.  ...  Recent advances in high-throughput RNA sequencing and circRNA-specific computational tools have driven the development of novel approaches to their identification and functional characterization.  ...  Introduction Circular RNAs (circRNAs) are a class of long non-coding RNA molecules with a covalently closed-loop structure.  ... 
doi:10.3390/ijms22137119 pmid:34281172 pmcid:PMC8268770 fatcat:hsjiigjxqvg23efekqocheyf3e

Docker4Circ: A Framework for the Reproducible Characterization of circRNAs from RNA-Seq Data

Giulio Ferrero, Nicola Licheri, Lucia Coscujuela Tarrero, Carlo De Intinis, Valentina Miano, Raffaele Adolfo Calogero, Francesca Cordero, Michele De Bortoli, Marco Beccuti, Apollo-University Of Cambridge Repository, Apollo-University Of Cambridge Repository
2020
defining circRNAs internal structures, Sailfish-circ [16], and circTest [17] for circRNAs quantification and differential expression analysis and CircView for visualization of circRNAs predictions [18]  ...  Many computational tools were developed for predicting circRNAs from RNA-Seq data [2, 13] , and different tools were proposed for the post-prediction analyses including FUCHS [14] and CIRI-AS [15] for  ...  The framework includes public analysis tools for RNA-Seq read quality control (FASTQC), read alignment (BWA and STAR), circRNA prediction (CIRI2 and STARChip), circRNA internal sequence analysis (CIRI-AS  ... 
doi:10.17863/cam.50747 fatcat:o4477rz73zagberu6zfkxaltoe