Obstacles to detecting isoforms using full-length scRNA-seq data.

ABSTRACT:

Background

Early single-cell RNA-seq (scRNA-seq) studies suggested that it was unusual to see more than one isoform being produced from a gene in a single cell, even when multiple isoforms were detected in matched bulk RNA-seq samples. However, these studies generally did not consider the impact of dropouts or isoform quantification errors, potentially confounding the results of these analyses.

Results

In this study, we take a simulation based approach in which we explicitly account for dropouts and isoform quantification errors. We use our simulations to ask to what extent it is possible to study alternative splicing using scRNA-seq. Additionally, we ask what limitations must be overcome to make splicing analysis feasible. We find that the high rate of dropouts associated w

SUBMITTER: Westoby J 

PROVIDER: S-EPMC7087381 | biostudies-literature | 2020 Mar

REPOSITORIES: biostudies-literature