Circular reverse transcription and size selection achieves a 20-fold higher enrichment of circRNAs from total RNA compared to previous methods. We developed an algorithm, called circRNA identifier using long-read sequencing data (CIRI-long), to reconstruct the sequence of circRNAs. The workflow was ...
The workflow was validated with simulated data and by comparison to Illumina sequencing as well as quantitative real-time RT鈥揚CR. We used CIRI-long to analyze adult mouse brain samples and systematically profile circRNAs, including mitochondria-derived and transcriptional read-through circRNAs. We ...
Circular RNAs (circRNAs) have important roles in regulating developmental processes and disease progression. As most circRNA sequences are highly similar to their cognate linear transcripts, the current short-read sequencing-based methods rely on the back-spliced junction signal for distinguishing circular...
(Desrosiers et al., 1974; Perry and Kelley, 1974), m6A has emerged as one of the post-transcriptional regulatory markers in different types of RNAs, including messenger RNAs (mRNAs), transfer RNAs (tRNAs), ribosomal RNAs (rRNAs), circular RNAs (circRNAs), micro RNAs (miRNA), and long ...
Next, we systematically identified over 263934 circRNAs in PD and healthy mice using the lower-input FL sequencing method, some of which came from 50.52% of PD-associated genes. Moreover, significant changes were observed in the circRNA expression pattern at an isoform level, and high-confidence...
The assembled full-length transcripts and their splicing patterns provide indispensable information to explore the biological function of circRNAs. The CIRI-long protocol combines circular reverse transcription and long-read nanopore sequencing to capture full-length circular RNA isoforms, allowing their ...
Nanopore sequencing of brain-derived full-length circRNAs reveals circRNA-specific exon usage, intron retention and microexons.doi:10.1038/S41467-021-24975-ZKarim RahimiMorten T. VenDaniel M. DupontJrgen KjemsSpringer Science and Business Media LLC...
benchmarking of this new technology against the current gold-standard platform (i.e., Illumina sequencers) is necessary to evaluate nanopore data and understand its benefits and limitations.The focus of this study is on the evaluation of nanopore sequencing data: read quality, sequencing errors, ...
These innovations, paired with the large-scale commercialization of biological nanopore sequencing by Oxford Nanopore Technologies, are making the platforms a mainstay in contemporary research laboratories. Equipped with the ability to provide long- and short read sequencing information, with quick turn-...