Nanopore sequencing Long-read Alternative splicing 1. Introduction CircRNAs are a group of RNAs defined by a covalent bond between the 5′ and 3′ end formed by a process known as back-splicing. The existence of these peculiar RNAs has been known since the seventies [1], [2] but it is ...
Hence, with advances in high-throughput long-read sequencing technology, several protocols for full-length sequencing of circRNAs have been developed (Hou et al., 2023, Liu et al., 2021, Xin et al., 2021). This study employs a well-known protocol, i.e., circRNA identifier using long-...
Here, we use long-read nanopore sequencing of nicked circRNAs (circNick-LRS) and characterize a total of 18,266 and 39,623 circRNAs in human and mouse brain, respectively. We further develop an approach for targeted long-read sequencing of a panel of circRNAs (circPanel-LRS), eliminating ...
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 ...
Long- and short-read sequencing protocols identify distinct pools of circRNAs To investigate method-specific biases in circRNA expression profiles, we also performed conventional short-read sequencing of rRNA-depleted libraries and used a combination of the find_circ and CIRI2 pipelines for circRNA pred...
Nanopore long-read sequencing of circRNAs Circular RNA (circRNA) is a group of highly stable RNA molecules with suggested roles in development and disease. They derive from linear pre-mRNAs when a ... K Rahimi,AF Nielsen,MT Ven,... - 《Methods》 被引量: 0发表: 2021年 Enabling high-accu...
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...
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...
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...