Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor
2006
Tools for Managing Repetitive DNA in Repbase
publication
Evidence: moderate
Author Information
Author(s): Kohany Oleksiy, Gentles Andrew J, Hankus Lukasz, Jurka Jerzy
Primary Institution: Genetic Information Research Institute
Hypothesis
The study aims to develop software tools to facilitate the updating and screening of repetitive elements in the Repbase database.
Conclusion
The software tools RepbaseSubmitter and Censor improve the efficiency of managing repetitive DNA sequences in Repbase.
Supporting Evidence
- Repbase is the most widely used database of transposable elements, with ~5800 entries as of October 2006.
- RepbaseSubmitter automates the formatting and annotation of Repbase entries to reduce user error.
- Censor uses BLAST to identify repetitive elements by comparing input sequences to known repeats.
Takeaway
This study created two tools that help scientists add and check repetitive DNA sequences in a big database, making it easier to work with this information.
Methodology
The study describes the development and features of two software tools, RepbaseSubmitter and Censor, for managing repetitive DNA sequences.
Digital Object Identifier (DOI)
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