The SBASE domain sequence library, release 10: Domain architecture prediction

Kristian Vlahoviček, Laszló Kaján, János Murvai, Z. Hegedűs, Sóndor Pongor

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

SBASE (http://www.icgeb.trieste.it/sbase) is an on-line collection of protein domain sequences and related computational tools designed to facilitate detection of domain homologies based on simple database search. The 10th 'jubilee release' of the SBASE library of protein domain sequences contains 1 052 904 protein sequence segments annotated by structure, function, ligand-binding or cellular topology, clustered into over 6000 domain groups. Domain identification and functional prediction are based on a comparison of BLAST search outputs with a knowledge base of biologically significant similarities extracted from known domain groups. The knowledge base is generated automatically for each domain group from the comparison of within-group ('self') and out-of-group ('non-self') similarities. This is a memory-based approach wherein group-specific similarity functions are automatically learned from the database.

Original languageEnglish
Pages (from-to)403-405
Number of pages3
JournalNucleic Acids Research
Volume31
Issue number1
DOIs
Publication statusPublished - Jan 1 2003

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Knowledge Bases
Libraries
Databases
Ligands
Proteins
Protein Domains

ASJC Scopus subject areas

  • Genetics

Cite this

The SBASE domain sequence library, release 10 : Domain architecture prediction. / Vlahoviček, Kristian; Kaján, Laszló; Murvai, János; Hegedűs, Z.; Pongor, Sóndor.

In: Nucleic Acids Research, Vol. 31, No. 1, 01.01.2003, p. 403-405.

Research output: Contribution to journalArticle

Vlahoviček, Kristian ; Kaján, Laszló ; Murvai, János ; Hegedűs, Z. ; Pongor, Sóndor. / The SBASE domain sequence library, release 10 : Domain architecture prediction. In: Nucleic Acids Research. 2003 ; Vol. 31, No. 1. pp. 403-405.
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