MIPS: analysis and annotation of proteins from whole genomes in 2005

By Hans-Werner Mewes, Dmitrij Frishman, Klaus F. X. Mayer, M. Münsterkötter, O. Noubibou, P. Pagel, Thomas Rattei, Matthias Oesterheld, Andreas Ruepp, V. Stümpflen. Nucleic Acids Res., 2006

330 citations recorded by the source corpus.

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).

Subfields: Molecular Biology

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Citations in the corpus

Block-LDA: Jointly Modeling Entity-Annotated Text and Entity-Entity Links (2014, background): “The Munich Institute for Protein Sequencing (MIPS) database [15] includes a hand-crafted collection of protein interactions covering 8000 protein complex associations in yeast.”
CORUM: the comprehensive resource of mammalian protein complexes (2007, methodology): “CORUM is embedded within the MIPS Genome Research Environment (GenRE) (20).”
Using graph theory to analyze biological networks (2011, methodology): “the aforementioned techniques and that are widely used are the Tong [8], Krogan [9], DIP [10], MIPS [ 11 ], Gavin 2002 [5] and Gavin 2006 [12] datasets.”