Re-assembly, quality evaluation, and annotation of 678 microbial eukaryotic reference transcriptomes.

ABSTRACT:

Background

De novo transcriptome assemblies are required prior to analyzing RNA sequencing data from a species without an existing reference genome or transcriptome. Despite the prevalence of transcriptomic studies, the effects of using different workflows, or "pipelines," on the resulting assemblies are poorly understood. Here, a pipeline was programmatically automated and used to assemble and annotate raw transcriptomic short-read data collected as part of the Marine Microbial Eukaryotic Transcriptome Sequencing Project. The resulting transcriptome assemblies were evaluated and compared against assemblies that were previously generated with a different pipeline developed by the National Center for Genome Research.

Results

New transcriptome assemblies contained the majority

SUBMITTER: Johnson LK 

PROVIDER: S-EPMC6481552 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature