ArticleActa pharmacologica Sinica2019
CircRNAFisher: a systematic computational approach for de novo circular RNA identification.
Article in Acta pharmacologica Sinica, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- CSDPCDA: A miRNA-Mediated Cross-Semantic Regulatory Network Framework for Predicting circRNA-Disease Associations.International journal of molecular sciences · 2026Article
- Accurate assembly of circular RNAs with TERRACE.Genome research · 2024Article
- Identification of circular RNAs regulating cardiomyocyte proliferation in neonatal pig hearts.JCI insight · 2024Article
- Computational approaches and challenges in the analysis of circRNA data.BMC genomics · 2024Review
- A novel CircRNA Circ_0001722 regulates proliferation and invasion of osteosarcoma cells through targeting miR-204-5p/RUNX2 axis.Journal of cancer research and clinical oncology · 2023Article
- New insight into circRNAs: characterization, strategies, and biomedical applications.Experimental hematology & oncology · 2023Review
- cRNAsp12 Web Server for the Prediction of Circular RNA Secondary Structures and Stabilities.International journal of molecular sciences · 2023Article
- Review
- InnovativeFrontiers in genetics · 2022Review
- A Brief Review of circRNA Biogenesis, Detection, and Function.Current genomics · 2021Review
- Insights into circular RNAs: their biogenesis, detection, and emerging role in cardiovascular disease.RNA biology · 2021Review
- Circular RNAs and their role in renal cell carcinoma: a current perspective.Cancer cell international · 2021Review
- Circular RNA circ_001422 promotes the progression and metastasis of osteosarcoma via the miR-195-5p/FGF2/PI3K/Akt axis.Journal of experimental & clinical cancer research : CR · 2021Article
- The bioinformatics toolbox for circRNA discovery and analysis.Briefings in bioinformatics · 2021Review
- Insights Into the Role of CircRNAs: Biogenesis, Characterization, Functional, and Clinical Impact in Human Malignancies.Frontiers in cell and developmental biology · 2021Review
- Disease-Associated Circular RNAs: From Biology to Computational Identification.BioMed research international · 2020Review
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Circular RNAs (circRNAs) are emerging species of mRNA splicing products with largely unknown functions. Although several computational pipelines for circRNA identification have been developed, these methods strictly rely on uniquely mapped reads overlapping back-splice junctions (BSJs) and lack approaches to model the statistical significance of the identified circRNAs. Here, we reported a systematic computational approach to identify circRNAs by simultaneously utilizing BSJ overlapping reads and discordant BSJ spanning reads to identify circRNAs. Moreover, we developed a novel procedure to estimate the P-values of the identified circRNAs. A computational cross-validation and experimental validations demonstrated that our method performed favorably compared to existing circRNA detection tools. We created a standalone tool, CircRNAFisher, to implement the method, which might be valuable to computational and experimental scientists studying circRNAs.
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Registered trials
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