MIPS bacterial genomes functional annotation benchmark dataset

Motivation: Any development of new methods for automatic functional annotation of proteins according to their sequences requires high-quality data (as benchmark) as well as tedious preparatory work to generate sequence parameters required as input data for the machine learning methods. Different pro...

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Bibliographic Details
Published in:Bioinformatics 2005-05, Vol.21 (10), p.2520-2521
Main Authors: Tetko, Igor V., Brauner, Barbara, Dunger-Kaltenbach, Irmtraud, Frishman, Goar, Montrone, Corinna, Fobo, Gisela, Ruepp, Andreas, Antonov, Alexey V., Surmeli, Dimitrij, Mewes, Hans-Wernen
Format: Article
Language:English
Subjects:
Bacterial Proteins - chemistry
Bacterial Proteins - classification
Bacterial Proteins - genetics
Benchmarking - methods
Biological and medical sciences
Chromosome Mapping - methods
Database Management Systems
Databases, Protein
Documentation - methods
Fundamental and applied biological sciences. Psychology
General aspects
Genome, Bacterial
Information Storage and Retrieval - methods
Internet
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
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Summary:Motivation: Any development of new methods for automatic functional annotation of proteins according to their sequences requires high-quality data (as benchmark) as well as tedious preparatory work to generate sequence parameters required as input data for the machine learning methods. Different program settings and incompatible protocols make a comparison of the analyzed methods difficult. Results: The MIPS Bacterial Functional Annotation Benchmark dataset (MIPS-BFAB) is a new, high-quality resource comprising four bacterial genomes manually annotated according to the MIPS functional catalogue (FunCat). These resources include precalculated sequence parameters, such as sequence similarity scores, InterPro domain composition and other parameters that could be used to develop and benchmark methods for functional annotation of bacterial protein sequences. These data are provided in XML format and can be used by scientists who are not necessarily experts in genome annotation. Availability: BFAB is available at http://mips.gsf.de/proj/bfab Contact: i.tetko@gsf.de
ISSN:1367-4803
1460-2059
1367-4811
DOI:10.1093/bioinformatics/bti380