A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes.

ABSTRACT: A platform for highly parallel direct sequencing of native RNA strands was recently described by Oxford Nanopore Technologies, but despite initial efforts it remains crucial to further investigate the technology for quantification of complex transcriptomes. Here we undertake native RNA sequencing of polyA + RNA from two human cell lines, analysing ~5.2 million aligned native RNA reads. To enable informative comparisons, we also perform relevant ONT direct cDNA- and Illumina-sequencing. We find that while native RNA sequencing does enable some of the anticipated advantages, key unexpected aspects currently hamper its performance, most notably the quite frequent inability to obtain full-length transcripts from single reads, as well as difficulties to unambiguously infer their true transcript

SUBMITTER: Soneson C 

PROVIDER: S-EPMC6668388 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature