Differential transcript usage analysis of bulk and single-cell RNA-seq data with DTUrtle.

ABSTRACT:

Motivation

Each year, the number of published bulk and single-cell RNA-seq datasets is growing exponentially. Studies analyzing such data are commonly looking at gene-level differences, while the collected RNA-seq data inherently represents reads of transcript isoform sequences. Utilizing transcriptomic quantifiers, RNA-seq reads can be attributed to specific isoforms, allowing for analysis of transcript-level differences. A differential transcript usage (DTU) analysis is testing for proportional differences in a gene's transcript composition, and has been of rising interest for many research questions, such as analysis of differential splicing or cell-type identification.

Results

We present the R package DTUrtle, the first DTU analysis workflow for both bulk and single-cell

SUBMITTER: Tekath T 

PROVIDER: S-EPMC8570804 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature