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Polymorphix: a sequence polymorphism database.

Eric Bazin1, Laurent Duret, Simon Penel

  • 1Laboratoire Génome Populations Interactions Adaptation, Unité Mixte de Recherche No. 5171 (UMR UM2-IFREMER-CNRS), Université de Montpellier 2, 34095 Montpellier Cedex 5, France. bazin@univ-montp2.fr

Nucleic Acids Research
|December 21, 2004
PubMed
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Polymorphix is a new database that centralizes within-species sequence variation data. This resource aids population genomic studies by providing easy access to homologous sequence families and phylogenetic analyses.

Area of Science:

  • Genomics
  • Molecular Evolution
  • Bioinformatics

Background:

  • Within-species sequence variation data are crucial for understanding population history and evolutionary forces.
  • Current data are fragmented across generalist databases, hindering accessibility for researchers.
  • Efficient access to population genomic data is essential for advancing evolutionary studies.

Purpose of the Study:

  • To develop a dedicated database for within-species sequence polymorphism data.
  • To consolidate dispersed sequence variation information into an accessible format.
  • To facilitate population genomic studies through integrated data and analysis tools.

Main Methods:

  • Creation of homologous sequence families from EMBL/GenBank data based on similarity and bibliographic criteria.

Related Experiment Videos

  • Utilizing the ACNUC database structure for efficient data management and querying.
  • Web interface development for user-friendly access and data retrieval.

    • Main Results:

    • Polymorphix database successfully integrates within-species sequence variation data.
    • The database supports both simple and complex queries for population genomic research.
    • Users can download alignments, phylogenetic trees, and associated outgroup information.

    Conclusions:

    • Polymorphix addresses the challenge of accessing dispersed sequence polymorphism data.
    • The database enhances the study of population history and molecular evolutionary forces.
    • Provides a valuable resource for eukaryotic population genomic research across nuclear, mitochondrial, and chloroplastic genomes.