Abstract

Abstract MOTIVATION: To cope with the increasing amount of sequence data, reliable automatic annotation tools are required. The TrEMBL database contains together with SWISS-PROT nearly all publicly available protein sequences, but in contrast to SWISS-PROT only limited functional annotation. To improve this situation, we had to develop a method of automatic annotation that produces highly reliable functional prediction using the language and the syntax of SWISS-PROT. RESULTS: An algorithm was developed and successfully used for the automatic annotation of a testset of unknown proteins. The predicted information included description, function, catalytic activity, cofactors, pathway, subcellular location, quaternary structure, similarity to other protein, active sites, and keywords. The algorithm showed a low coverage (10%), but a high specificity and reliability. AVAILABILITY: The results can be obtained by anonymous ftp from ftp.ebi.ac.uk/pub/databases/sp_tr_nrdb. The source code is available on request from the authors.

Keywords

AnnotationComputer scienceComputational biologyArtificial intelligenceNatural language processingInformation retrievalBiology

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Publication Info

Year
1999
Type
article
Volume
15
Issue
3
Pages
228-233
Citations
90
Access
Closed

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Wolfgang Fleischmann, S Möller, A Gateau et al. (1999). A novel method for automatic functional annotation of proteins.. Bioinformatics , 15 (3) , 228-233. https://doi.org/10.1093/bioinformatics/15.3.228

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DOI
10.1093/bioinformatics/15.3.228