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Related Experiment Videos

GoSh: a web-based database for goat and sheep EST sequences.

Andrea Caprera1, Barbara Lazzari, Alessandra Stella

  • 1Parco Tecnologico Padano, Località Cascina Codazza, Lodi, Italy. andrea.caprera@tecnoparco.org

Bioinformatics (Oxford, England)
|March 27, 2007
PubMed
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The GoSh database provides a valuable resource for goat (Capra hircus) and sheep (Ovis aries) expressed sequence tags. This comprehensive database facilitates research on sheep and goat genes through advanced querying and annotation features.

Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • The GoSh database aggregates 58,990 expressed sequence tags from Capra hircus (goat) and Ovis aries (sheep).
  • It serves as a centralized repository for genetic information on these livestock species.

Purpose of the Study:

  • To develop and present the GoSh database, a specialized resource for goat and sheep expressed genes.
  • To enable efficient data retrieval, analysis, and exploration for researchers in ovine and caprine genomics.

Main Methods:

  • Utilized a Perl pipeline for sequence processing and a MySQL database for data storage.
  • Implemented a PHP-based web interface for user-friendly browsing and querying.
  • Performed single nucleotide polymorphism (SNP) detection and repeat analysis.
  • Annotated sequences against multiple databases and developed an algorithm for Gene Ontology (GO) distribution statistics.

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Main Results:

  • Successfully curated and organized a substantial collection of goat and sheep expressed sequence tags.
  • Integrated tools for SNP detection, repeat searching, and homology-based annotation.
  • Provided links to external resources and statistical analysis of gene ontology distributions.

Conclusions:

  • The GoSh database offers a robust platform for accessing and analyzing goat and sheep gene expression data.
  • It supports comparative genomics and functional studies in ovine and caprine species.
  • The database enhances research accessibility and data integration in livestock genetics.