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Infrastructure for the life sciences: design and implementation of the UniProt website.

Eric Jain1, Amos Bairoch, Severine Duvaud

  • 1Swiss-Prot Group, Swiss Institute of Bioinformatics, CMU, 1 Michel Servet, 1211 Geneva 4, Switzerland. eric.jain@gmail.com

BMC Bioinformatics
|May 12, 2009
PubMed
Summary

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The new UniProt website offers a unified and improved user experience for accessing protein data. This redesign simplifies data retrieval and enhances usability for researchers worldwide.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Proteomics

Background:

  • The UniProt consortium, established in 2002, initially directed users to separate websites of its member organizations (SIB, EBI, PIR).
  • These disparate sites offered varying interfaces for data searching and viewing, leading to an inconsistent user experience.
  • To address this, the consortium aimed to develop a single, common website for UniProt resources.

Purpose of the Study:

  • To describe the design and implementation of the new, unified UniProt website.
  • To enhance data accessibility and user experience for diverse user levels and programmatic access.
  • To provide a consistent entry point to UniProt's extensive protein sequence and annotation data.

Main Methods:

  • Development of a common website for UniProt, integrating resources from SIB, EBI, and PIR.

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  • Implementation of features including full-text and field-based search, similarity search, multiple sequence alignment, and identifier mapping.
  • Extensive public beta testing over a year prior to the official release in July 2008.

    • Main Results:

    • The new UniProt website (http://www.uniprot.org) was launched in July 2008, replacing the previous redirected sites.
    • Improved data access for users with varying experience levels and for machine-to-machine programmatic access.
    • The website is built with open-source tools and is available for academic and commercial use.

    Conclusions:

    • The redesigned UniProt website significantly enhances the ease of accessing and understanding protein data.
    • Key learnings emphasize the critical importance of foundational website design and the necessity of user-centric development informed by empirical data.
    • The project highlights the benefits of a unified platform for data providers and the challenges in underestimating core usability features.