Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor.

ABSTRACT:

Background

Repbase is a reference database of eukaryotic repetitive DNA, which includes prototypic sequences of repeats and basic information described in annotations. Updating and maintenance of the database requires specialized tools, which we have created and made available for use with Repbase, and which may be useful as a template for other curated databases.

Results

We describe the software tools RepbaseSubmitter and Censor, which are designed to facilitate updating and screening the content of Repbase. RepbaseSubmitter is a java-based interface for formatting and annotating Repbase entries. It eliminates many common formatting errors, and automates actions such as calculation of sequence lengths and composition, thus facilitating curation of Repbase sequences. In addi

SUBMITTER: Kohany O 

PROVIDER: S-EPMC1634758 | biostudies-literature | 2006 Oct

REPOSITORIES: biostudies-literature