ArticleGenome medicine2019
Reconstruction of full-length circular RNAs enables isoform-level quantification.
Article in Genome medicine, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers.
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Who cites it
111 citing papers in PubMed.
- Circular RNAs Associated with Human Cytomegalovirus Infection.Molecules (Basel, Switzerland) · 2026Review
- Revolutionizing MDD diagnosis: the integrated role of circRNAs and biosensor technology.Molecular psychiatry · 2026Review
- Circular RNAs: Unlocking new avenues in cardiometabolic disease management.The Journal of physiology · 2026Review
- Detecting and quantifying circular RNAs in terabyte-scale RNA-seq datasets with CIRI3.Nature biotechnology · 2026Article
- circASbase: A Comprehensive Database of Alternative Splicing Events in circRNAs.Genomics, proteomics & bioinformatics · 2026Article
- HnRNP C binding to invertedScience advances · 2026Article
- Whole transcriptome sequencing of different hair types in inner Mongolian cashmere goats.BMC genomics · 2026Article
- AQUARIUM_HB: a bioinformatics pipeline for human blood circular RNA analysis.Non-coding RNA research · 2026Article
- ZEB1-mediated suppression of circDennd1b promotes the migration and invasion of lung cancer cells.Animal cells and systems · 2026Article
- Construction and Analysis of circRNA-miRNA-mRNA Regulatory Networks.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Long-Read Sequencing Reveals RNA Splicing Complexity in Human Diseases.Computational and structural biotechnology journal · 2026Review
- EIciRNAs in focus: current understanding and future perspectives.RNA biology · 2025Review
- Accurate Reconstruction of Circular RNAs from Complex Rolling Circular Long Reads with CircPlex.bioRxiv : the preprint server for biology · 2025Article
- Article
- Identification and characterization of tissue- and stress-specific circular RNAs (circRNAs) of tea to generate the largest tea circRNAs data repository.Scientific reports · 2025Article
- Circular RNAs in Cardiovascular Physiopathology: From Molecular Mechanisms to Therapeutic Opportunities.International journal of molecular sciences · 2025Review
- Past, present, and future strategies for detecting and quantifying circular RNA variants.The FEBS journal · 2025Review
- Mining, validating, and quantifying circular RNA transcriptome from total RNA as a biomarker or target.Scientific reports · 2025Article
- Circular RNA discovery with emerging sequencing and deep learning technologies.Nature genetics · 2025Review
- Circular RNAs in neurological conditions - computational identification, functional validation, and potential clinical applications.Molecular psychiatry · 2025Review
51 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Currently, circRNA studies are shifting from the identification of circular transcripts to understanding their biological functions. However, such endeavors have been limited by large-scale determination of their full-length sequences and also by the inability of accurate quantification at the isoform level. Here, we propose a new feature, reverse overlap (RO), for circRNA detection, which outperforms back-splice junction (BSJ)-based methods in identifying low-abundance circRNAs. By combining RO and BSJ features, we present a novel approach for effective reconstruction of full-length circRNAs and isoform-level quantification from the transcriptome. We systematically compared the difference between the BSJ-level and isoform-level differential expression analyses using human liver tumor and normal tissues and highlight the necessity of deepening circRNA studies to the isoform-level resolution. The CIRI-full software can be accessed at https://sourceforge.net/projects/ciri .
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Registered trials
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