Thu, 21 Aug 2008 15:20:35 BST CiteULike: irenas Münsterkötter http://www.citeulike.org/user/irenas/author/Münsterkötter CiteULike.org en-gb Copyright © 2004-2008 citeulike.org http://www.citeulike.org/user/irenas/article/752838 <i>Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005)</i><br /><br />The Comprehensive Yeast Genome Database (CYGD) compiles a comprehensive data resource for information on the cellular functions of the yeast Saccharomyces cerevisiae and related species, chosen as the best understood model organism for eukaryotes. The database serves as a common resource generated by a European consortium, going beyond the provision of sequence information and functional annotations on individual genes and proteins. In addition, it provides information on the physical and functional interactions among proteins as well as other genetic elements. These cellular networks include metabolic and regulatory pathways, signal transduction and transport processes as well as co-regulated gene clusters. As more yeast genomes are published, their annotation becomes greatly facilitated using S.cerevisiae as a reference. CYGD provides a way of exploring related genomes with the aid of the S.cerevisiae genome as a backbone and SIMAP, the Similarity Matrix of Proteins. The comprehensive resource is available under http://mips.gsf.de/genre/proj/yeast/. CYGD: the Comprehensive Yeast Genome Database. U Güldener M Münsterkötter G Kastenmüller N Strack J van Helden C Lemer J Richelles SJ Wodak J García-Martínez JE Pérez-Ortín H Michael A Kaps E Talla B Dujon B André JL Souciet J De Montigny E Bon C Gaillardin HW Mewes Nucleic Acids Res, Vol. 33, No. Database issue. (1 January 2005) 2006-07-11T13:45:42-00:00 2005 Nucleic Acids Res 1362-4962 33 Database issue db new http://www.citeulike.org/user/irenas/article/512 <i>Nucleic Acids Res, Vol. 30, No. 1. (1 January 2002), pp. 31-34.</i><br /><br />The Munich Information Center for Protein Sequences (MIPS-GSF, Neuherberg, Germany) continues to provide genome-related information in a systematic way. MIPS supports both national and European sequencing and functional analysis projects, develops and maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences, and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the databases for the comprehensive set of genomes (PEDANT genomes), the database of annotated human EST clusters (HIB), the database of complete cDNAs from the DHGP (German Human Genome Project), as well as the project specific databases for the GABI (Genome Analysis in Plants) and HNB (Helmholtz-Netzwerk Bioinformatik) networks. The Arabidospsis thaliana database (MATDB), the database of mitochondrial proteins (MITOP) and our contribution to the PIR International Protein Sequence Database have been described elsewhere [Schoof et al. (2002) Nucleic Acids Res., 30, 91-93; Scharfe et al. (2000) Nucleic Acids Res., 28, 155-158; Barker et al. (2001) Nucleic Acids Res., 29, 29-32]. All databases described, the protein analysis tools provided and the detailed descriptions of our projects can be accessed through the MIPS World Wide Web server (http://mips.gsf.de). MIPS: a database for genomes and protein sequences. HW Mewes D Frishman U Güldener G Mannhaupt K Mayer M Mokrejs B Morgenstern M Münsterkötter S Rudd B Weil doi:10.1093/nar/30.1.31 Nucleic Acids Res, Vol. 30, No. 1. (1 January 2002), pp. 31-34. 2004-11-22T00:17:30-00:00 2002 Nucleic Acids Res 1362-4962 30 1 31 34 db yeast http://www.citeulike.org/user/irenas/article/509 <i>Nucleic Acids Res, Vol. 32 Database issue (1 January 2004)</i><br /><br />The Munich Information Center for Protein Sequences (MIPS-GSF), Neuherberg, Germany, provides protein sequence-related information based on whole-genome analysis. The main focus of the work is directed toward the systematic organization of sequence-related attributes as gathered by a variety of algorithms, primary information from experimental data together with information compiled from the scientific literature. MIPS maintains automatically generated and manually annotated genome-specific databases, develops systematic classification schemes for the functional annotation of protein sequences and provides tools for the comprehensive analysis of protein sequences. This report updates the information on the yeast genome (CYGD), the Neurospora crassa genome (MNCDB), the database of complete cDNAs (German Human Genome Project, NGFN), the database of mammalian protein-protein interactions (MPPI), the database of FASTA homologies (SIMAP), and the interface for the fast retrieval of protein-associated information (QUIPOS). The Arabidopsis thaliana database, the rice database, the plant EST databases (MATDB, MOsDB, SPUTNIK), as well as the databases for the comprehensive set of genomes (PEDANT genomes) are described elsewhere in the 2003 and 2004 NAR database issues, respectively. All databases described, and the detailed descriptions of our projects can be accessed through the MIPS web server (http://mips.gsf.de). MIPS: analysis and annotation of proteins from whole genomes. HW Mewes C Amid R Arnold D Frishman U Güldener G Mannhaupt M Münsterkötter P Pagel N Strack V Stümpflen J Warfsmann A Ruepp Nucleic Acids Res, Vol. 32 Database issue (1 January 2004) 2004-11-22T00:17:30-00:00 2004 Nucleic Acids Res 1362-4962 32 Database issue db yeast