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The ARKdb: genome databases for farmed and other animals.

J Hu1, C Mungall, A Law

  • 1Roslin Institute, Roslin, Midlothian EH25 9PS, Scotland, UK.

Nucleic Acids Research
|January 11, 2000
PubMed
Summary
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ARKdb offers a versatile genome mapping database for farmed and other animal species. This resource provides a centralized platform for accessing and managing crucial genomic data, supporting research across diverse animal populations.

Area of Science:

  • Animal Genomics
  • Bioinformatics
  • Comparative Genomics

Background:

  • Genome mapping data for farmed and other animal species are often fragmented across various resources.
  • Developing species-specific genome databases can be resource-intensive and prohibitive for many species.
  • Existing databases like GDB and MGD serve human and mouse, highlighting a need for broader animal genomic data repositories.

Purpose of the Study:

  • To establish ARKdb, a comprehensive and generic genome database for farmed and other animal species.
  • To provide a publicly accessible repository for genome mapping data, facilitating research and data sharing.
  • To demonstrate the utility of a generic database model for species with limited dedicated resources.

Main Methods:

  • Implementation of a generic genome database model.

Related Experiment Videos

  • Data integration including loci, maps, experimental methods, and references.
  • Development of web-based access tools: ARKdb browser and Anubis map viewer.
  • Establishment of data curation processes involving active genome research scientists.

    • Main Results:

    • ARKdb has been successfully implemented for 10 species: pig, chicken, sheep, cattle, horse, deer, tilapia, cat, turkey, and salmon.
    • The database provides access to detailed genome mapping information and links to external resources like PubMed and EMBL/GenBank.
    • A generic database model proved effective, offering wide utility, especially for species lacking dedicated resources.
    • Shared responsibility for data entry and curation ensures data quality and relevance.

    Conclusions:

    • ARKdb serves as a valuable, comprehensive public repository for animal genome mapping data.
    • The generic database approach enhances accessibility and utility for a wide range of animal species.
    • ARKdb supports the advancement of genome research in farmed and other animals through shared data and resources.