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Rattei, T.* ; Tischler, P.* ; Arnold, R.* ; Hamberger, F.* ; Krebs, J.* ; Krumsiek, J.* ; Wachinger, B.* ; Stuempflen, V. ; Mewes, H.-W.

SIMAP­-structuring the network of protein similarities.

Nucleic Acids Res. 36, D289-D292 (2008)
Publ. Version/Full Text Volltext DOI PMC
Open Access Gold
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Protein sequences are the most important source of evolutionary and functional information for new proteins. In order to facilitate the computationally intensive tasks of sequence analysis, the Similarity Matrix of Proteins (SIMAP) database aims to provide a comprehensive and up-to-date dataset of the pre-calculated sequence similarity matrix and sequence-based features like InterPro domains for all proteins contained in the major public sequence databases. As of September 2007, SIMAP covers approximately 17 million proteins and more than 6 million non-redundant sequences and provides a complete annotation based on InterPro 16. Novel features of SIMAP include a new, portlet-based web portal providing multiple, structured views on retrieved proteins and integration of protein clusters and a unique search method for similar domain architectures. Access to SIMAP is freely provided for academic use through the web portal for individuals at http://mips.gsf.de/simap/and through Web Services for programmatic access at http://mips.gsf.de/webservices/services/SimapService2.0?wsdl.
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Publication type Article: Journal article
Document type Scientific Article
Corresponding Author
Keywords DATABASE; SEQUENCE; INFORMATION; GENOMES; NCBI
ISSN (print) / ISBN 0305-1048
e-ISSN 1362-4962
Journal Nucleic Acids Research
Quellenangaben Volume: 36, Issue: SI, Pages: D289-D292 Article Number: , Supplement: ,
Publisher Oxford University Press
Non-patent literature Publications
Reviewing status Peer reviewed
Institute(s) Institute of Bioinformatics and Systems Biology (IBIS)