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PEDANT genome database

http://pedant.gsf.de

Frishman, D.1, Mokrejs, M.1, Kosykh, D.1, Kastenmüller, G.1, Kolesov, G.1, Zubrzycki, I.1, Gruber, C.2, Geier, B.2, Kaps, A.2, Albermann, K.2, Volz, A.2, Wagner, C.2, Fellenberg, M.2, Heumann, K.2, Mewes, H.-W.3

1Institute for Bioinformatics, GSF - National Research Center for Environment and Heath, Ingolstädter Landstraße 1, 85764 Neueherberg, Germany
2Biomax Informatics AG, Lochhamer Straße 11, 82152 Martinsried, Germany
3Department of Genome-oriented Bioinformatics, Wissenschaftszentrum Weihenstephan, Technische Universität München, 85350 Freising, German

Contact   d.frishman@gsf.de


Database Description

The PEDANT genome database (http://pedant.gsf.de) provides exhaustive automatic analysis of genomic sequences by a large variety of established bioinformatics tools through a comprehensive Web-based user interface. 177 completely sequenced and unfinished genomes have been processed so far, including large eukaryotic genomes (mouse, human) published recently. In this contribution we describe the current status of the PEDANT database and novel analytical features added to the PEDANT server in 2002. Those include: i) integration with the BioRS ™ data retrieval system which allows fast text queries, ii) pre-computed sequence clusters in each complete genome, iii) a comprehensive set of tools for genome comparison, including genome comparison tables and protein function prediction based on genomic context, and iv) computation and visualization of protein-protein interaction networks based on experimental data. The availability of functional and structural predictions for 650.000 genomic proteins in well organized form makes PEDANT a useful resource for both functional and structural genomics.

Recent Developments

See abstract

REFERENCES

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Category   Genomic Databases

Go to the abstract in the NAR 2003 Database Issue.

 

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