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KIND-a non-redundant protein database.

Y Kallberg1, B Persson

  • 1Department of Medical Biochemistry and Biophysics, Karolinska Institutet,S-171 77 Stockholm, Sweden. yvonne.kallberg@mbb.ki.se

Bioinformatics (Oxford, England)
|May 1, 1999
PubMed
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The Karolinska Institutet Nonredundant Database (KIND) offers a curated protein sequence collection. It removes identical entries, providing a unique set of nearly 275,000 protein sequences for research.

Area of Science:

  • Bioinformatics
  • Protein Sequence Analysis
  • Database Development

Background:

  • Protein sequence databases are crucial for biological research.
  • Redundant sequences can complicate data analysis and interpretation.
  • A need exists for non-redundant protein sequence repositories.

Purpose of the Study:

  • To introduce the Karolinska Institutet Nonredundant Database (KIND).
  • To describe the content and curation process of the KIND database.
  • To provide researchers with a non-redundant protein sequence resource.

Main Methods:

  • Development of a protein database (KIND).
  • Implementation of algorithms to identify and remove identical sequences (full-length and partial).
  • Integration of sequences from established protein databases (Swissprot, PIR, GenPept, TrEMBL).

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Main Results:

  • KIND contains approximately 274,900 unique protein sequences.
  • 50% of KIND sequences are derived from Swissprot and PIR.
  • The remaining 50% originate from translated open reading frames in GenPept and TrEMBL.

Conclusions:

  • KIND serves as a valuable, non-redundant protein sequence database.
  • The database consolidates and curates protein data from multiple sources.
  • KIND is available for download, facilitating its use in various research applications.