Impact of Aligner, Normalization Method, and Sequencing Depth on TempO-seq Accuracy.

ABSTRACT: High-throughput transcriptomics has advanced through the introduction of TempO-seq, a targeted alternative to traditional RNA-seq. TempO-seq platforms use 50 nucleotide probes, each specifically designed to target a known transcript, thus allowing for reduced sequencing depth per sample compared with RNA-seq without compromising the accuracy of results. Thus far, studies using the TempO-seq method have relied on existing tools for processing the resulting short read data. However, these tools were originally designed for other data types. While they have been used for processing of early TempO-seq data, they have not been systematically assessed for accuracy or compared to determine an optimal framework for processing and analyzing TempO-seq data. In this work, we re-analyze several public

SUBMITTER: Everett LJ 

PROVIDER: S-EPMC9067045 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature