SQANTI: extensive characterization of long-read transcript sequences for quality control in full-length transcriptome identification and quantification.

ABSTRACT: High-throughput sequencing of full-length transcripts using long reads has paved the way for the discovery of thousands of novel transcripts, even in well-annotated mammalian species. The advances in sequencing technology have created a need for studies and tools that can characterize these novel variants. Here, we present SQANTI, an automated pipeline for the classification of long-read transcripts that can assess the quality of data and the preprocessing pipeline using 47 unique descriptors. We apply SQANTI to a neuronal mouse transcriptome using Pacific Biosciences (PacBio) long reads and illustrate how the tool is effective in characterizing and describing the composition of the full-length transcriptome. We perform extensive evaluation of ToFU PacBio transcripts by PCR to reveal that

SUBMITTER: Tardaguila M 

PROVIDER: S-EPMC5848618 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature