PlasmidScope: A Comprehensive Plasmid Database
Author Information
Author(s): Li Yinhu, Feng Xikang, Chen Xuhua, Yang Shuo, Zhao Zicheng, Chen Yu, Li Shuai Cheng
Primary Institution: Chinese Academy of Sciences
Hypothesis
There is a need for a comprehensive, standardized, and annotated plasmid database to address the vast accumulation of plasmid sequences.
Conclusion
PlasmidScope is a powerful tool that provides a comprehensive database of plasmids with rich annotations and online analytical tools.
Supporting Evidence
- PlasmidScope contains a collection of 852,600 plasmids curated from 10 repositories.
- PlasmidScope provides detailed annotations for plasmids, including topological structure and mobility predictions.
- PlasmidScope integrates online analytical modules for custom plasmid analysis.
Takeaway
PlasmidScope is like a big library for tiny DNA circles called plasmids, helping scientists understand how they work and how they can spread genes.
Methodology
The study involved extensive searches across public repositories to curate plasmid sequences, followed by filtering, deduplication, and annotation using various bioinformatics tools.
Potential Biases
Potential bias in the selection of plasmids from specific repositories may affect the comprehensiveness of the database.
Limitations
The database may not capture all plasmid diversity due to limitations in existing plasmid databases and the focus on curated sequences.
Statistical Information
P-Value
p<0.001
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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