What question did this study set out to answer?

To present the expanded reference databases and updated bioinformatics tools in Release 11 of the Ribosomal Database Project (RDP) for high-throughput sequence workflows.

November 27, 2013Nucleic Acids ResearchOpen Access

Ribosomal Database Project: data and tools for high throughput rRNA analysis

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Authors

JCJames R. ColeMichigan State University QWQiong WangChina Three Gorges University JFJordan FishMichigan State University

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Implication

Resource report reveals expanded fungal rRNA libraries and open-source processing tools for high-throughput sequence data, highlighting improved scalability in microbial profiling.

Key Points

To present the expanded reference databases and updated bioinformatics tools in Release 11 of the Ribosomal Database Project (RDP) for high-throughput sequence workflows.
Curated and integrated aligned, annotated collections of fungal large subunit (LSU) rRNA genes alongside existing bacterial and archaeal small subunit (SSU) rRNA datasets.
Updated analytical tools, including the RDP Classifier and Aligner, to support both single-stranded and paired-end high-throughput sequencing reads.
Released core pipeline components as downloadable open-source software packages to enable local, high-volume computing.
RDP Release 11 broadens taxonomic coverage by fully integrating fungal LSU gene collections into the standard annotation framework.
Algorithmic updates to Classifier and Aligner enable high-throughput parsing of paired-end and single-stranded environmental reads.
Open-source local distribution allows researchers to build customized, high-throughput sequence analysis pipelines independent of web server constraints.

Cite This Study

Cole et al. (2013) studied this question.

synapsesocial.com/papers/69d71c443f906f6a06bef0db https://doi.org/10.1093/nar/gkt1244

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Implication

Resource report reveals expanded fungal rRNA libraries and open-source processing tools for high-throughput sequence data, highlighting improved scalability in microbial profiling.

Ribosomal Database Project: data and tools for high throughput rRNA analysis

Discussion

Member takes

Implication

Key Points

Cite This Study

Ribosomal Database Project: data and tools for high throughput rRNA analysis

Discussion

Member takes

Implication

Key Points

Cite This Study

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