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The Protein Information Resource.

Cathy H Wu1, Lai-Su L Yeh, Hongzhan Huang

  • 1Department of Biochemistry and Molecular Biology, Georgetown University Medical Center, 3900 Reservoir Road, NW, Box 571414, Washington, DC 20057-1414, USA. pirmail@georgetown.edu

Nucleic Acids Research
|January 10, 2003
PubMed
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The Protein Information Resource (PIR) offers integrated protein databases like PSD and NREF, supporting genomic and proteomic research. It enhances data analysis through advanced search tools and literature integration for scientific discovery.

Area of Science:

  • Bioinformatics
  • Proteomics
  • Genomics

Background:

  • The Protein Information Resource (PIR) is a crucial public resource for protein informatics.
  • It supports genomic and proteomic research by providing integrated protein data.

Purpose of the Study:

  • To describe the Protein Information Resource (PIR) and its integrated databases.
  • To highlight PIR's functionalities for data analysis, retrieval, and knowledge discovery.

Main Methods:

  • PIR maintains the Protein Sequence Database (PSD) with over 283,000 annotated sequences.
  • Family classification and superfamily curation are employed for sensitive identification and improved automated classification.
  • A bibliography system facilitates literature searching and user submission of experimental annotations.

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  • PIR also manages NREF and iProClass databases, integrating diverse protein information.

    • Main Results:

    • PIR-NREF aggregates over 1,000,000 protein sequences from multiple sources.
    • The PIR website offers tools for interactive queries, combined searches, and data exploration.
    • Biweekly releases of PSD and NREF are available via FTP for free download.

    Conclusions:

    • PIR provides a comprehensive and integrated platform for protein research.
    • Its extensive databases and advanced tools facilitate scientific discovery in genomics and proteomics.