De novo assembly of bacterial transcriptomes from RNA-seq data.
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ABSTRACT:
SUBMITTER: Tjaden B
PROVIDER: S-EPMC4316799 | biostudies-literature | 2015 Jan
REPOSITORIES: biostudies-literature
Publications
De novo assembly of bacterial transcriptomes from RNA-seq data.
Genome biology 20150113
Transcriptome assays are increasingly being performed by high-throughput RNA sequencing (RNA-seq). For organisms whose genomes have not been sequenced and annotated, transcriptomes must be assembled de novo from the RNA-seq data. Here, we present novel algorithms, specific to bacterial gene structures and transcriptomes, for analysis of bacterial RNA-seq data and de novo transcriptome assembly. The algorithms are implemented in an open source software system called Rockhopper 2. We find that Roc ...[more]
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