Recently, accumulating evidence has supported that circular RNA (circRNA) plays important roles in tumorigenesis by regulating gene expression at transcriptional and post-transcriptional levels. Expression of circRNAs can be epigenetically silenced by DNA methylation; however, the underlying regulatory mechanisms of circRNAs ...
Read More »seekCRIT – detecting and characterizing differentially expressed circular RNAs using high-throughput sequencing data
Over the past two decades, researchers have discovered a special form of alternative splicing that produces a circular form of RNA. Although these circular RNAs (circRNAs) have garnered considerable...
Read More »Ultrasensitive detection of circular RNA by accurate recognition of the specific junction site
Circular RNAs (circRNAs), as a class of newly emerging biomarkers, have shown to be associated with many fundamental life processes and diseases, especially cancer. However, various limitations in currently available detection methods have...
Read More »Closing the circle – current state and perspectives of circular RNA databases
Circular RNAs (circRNAs) are covalently closed RNA molecules that have been linked to various diseases, including cancer. However, a precise function and working mechanism are lacking for the larger majority. Following many different experimental and...
Read More »Genome-wide discovery of circular RNAs in plants
Recently, identification and functional studies of circular RNAs, a type of non-coding RNAs arising from a ligation of 3′ and 5′ ends of a linear RNA molecule, were conducted in mammalian cells with the development of RNA-seq technology. Compared with ...
Read More »Computational databases and tools for deciphering novel molecules lncRNAs, tRFs and circRNAs from RNA-Seq
Powerful next-generation sequencing (NGS) technologies, more specifically RNA sequencing (RNA-seq), have been pivotal toward the detection and analysis and hypotheses generation of novel biomolecules, long noncoding RNAs (lncRNAs), tRNA-derived fragments (tRFs) and circular RNAs (circRNAs). Experimental validation of the occurrence ...
Read More »Novel molecules – lncRNAs, tRFs and circRNAs deciphered from next-generation sequencing
Powerful next-generation sequencing (NGS) technologies, more specifically RNA sequencing (RNA-seq), have been pivotal toward the detection and analysis and hypotheses generation of novel biomolecules, long noncoding RNAs (lncRNAs), tRNA-derived fragments (tRFs) and circular RNAs (circRNAs). Experimental validation of the occurrence ...
Read More »hppRNA – a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples
RNA-Seq technology has been gradually becoming a routine approach for characterizing the properties of transcriptome in terms of organisms, cell types and conditions and consequently a big burden has been put on the facet of data analysis, which calls for ...
Read More »Acfs – circRNA identification and quantification from RNA-Seq data
Circular RNAs (circRNAs) are a group of single-stranded RNAs in closed circular form. They are splicing-generated, widely expressed in various tissues and have functional implications in development and diseases. To facilitate genome-wide characterization of circRNAs using RNA-Seq data, researchers from ...
Read More »Detecting circular RNAs from RNA-Seq data
The pervasive expression of circular RNAs (circRNAs) is a recently discovered feature of gene expression in highly diverged eukaryotes. Numerous algorithms that are used to detect genome-wide circRNA expression from RNA sequencing (RNA-seq) data have been developed in the past ...
Read More »