Research Topics
| Andreas RueppSummaryCountry: Germany Publications
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Detail Information
Publications
PhenomiR: microRNAs in human diseases and biological processesAndreas Ruepp
Institute for Bioinformatics and Systems Biology MIPS, Helmholtz Zentrum Munchen, German Research Center for Environmental Health, Neuherberg, Germany
Methods Mol Biol 822:249-60. 2012..We summarize the PhenomiR data structure and its content and show how to access the database and use it in everyday miRNA profile analysis using the R language...- PhenomiR: a knowledgebase for microRNA expression in diseases and biological processesAndreas Ruepp
Institute for Bioinformatics and Systems Biology MIPS, Helmholtz Center Munich German Research Center for Environmental Health GmbH, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
Genome Biol 11:R6. 2010..Using the PhenomiR dataset, we could demonstrate that, depending on disease type, independent information from cell culture studies contrasts with conclusions drawn from patient studies... - CORUM: the comprehensive resource of mammalian protein complexes--2009Andreas Ruepp
Institute for Bioinformatics and Systems Biology, Helmholtz Zentrum Munchen German Research Center for Environmental Health, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 38:D497-501. 2010..This allows one to predict the occurrence of protein complexes in different phylogenetic groups. CORUM is freely accessible at (http://mips.helmholtz-muenchen.de/genre/proj/corum/index.html)... - The Negatome database: a reference set of non-interacting protein pairsPawel Smialowski
Institute for Bioinformatics and Systems Biology MIPS, HMGU German Research Center for Environmental Health Ingolstaedter Landstrasse 1, 85764 Neuherberg, Germany
Nucleic Acids Res 38:D540-4. 2010..It can be used to evaluate protein and domain interactions from new experiments and improve the training of interaction prediction algorithms. The Negatome database is available at http://mips.helmholtz-muenchen.de/proj/ppi/negatome... - Super paramagnetic clustering of protein sequencesIgor V Tetko
GSF National Research Center for Environment and Health, Institute for Bioinformatics, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
BMC Bioinformatics 6:82. 2005..The presence of domains in protein families of diverse function, inhomogeneity and different sizes of protein families create considerable difficulties for the application of published clustering methods... - The Mouse Functional Genome Database (MfunGD): functional annotation of proteins in the light of their cellular contextAndreas Ruepp
Institute for Bioinformatics MIPS, GSF National Research Center for Environment and Health, Ingolstaedter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 34:D568-71. 2006..MfunGD is implemented in GenRE, a J2EE-based component-oriented multi-tier architecture following the separation of concern principle... - CORUM: the comprehensive resource of mammalian protein complexesAndreas Ruepp
Institute for Bioinformatics MIPS, German Research Center for Environmental Health, Ingolstaedter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 36:D646-50. 2008..Comparable to the MIPS reference dataset of protein complexes from yeast, CORUM intends to serve as a reference for mammalian protein complexes... - CRONOS: the cross-reference navigation serverBrigitte Waegele
Institute for Bioinformatics and Systems Biology MIPS, Helmholtz Zentrum Munchen German Research Center for Environmental Health GmbH, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
Bioinformatics 25:141-3. 2009..AVAILABILITY: CRONOS is freely available to non-commercial users at http://mips.gsf.de/genre/proj/cronos/index.html, web services are available at http://mips.gsf.de/CronosWSService/CronosWS?wsdl... - MPact: the MIPS protein interaction resource on yeastUlrich Guldener
Institute for Bioinformatics, GSF National Research Center for Environment and Health, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 34:D436-41. 2006..The complete dataset as well as user-defined sub-networks can be retrieved easily in the standardized PSI-MI format. The resource can be accessed through http://mips.gsf.de/genre/proj/mpact... - MIPS: curated databases and comprehensive secondary data resources in 2010H Werner Mewes
Institute for Bioinformatics and Systems Biology, MIPS, Helmholtz Center F Health and Environment, Ingolstadter Landstr 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 39:D220-4. 2011..All databases described here, as well as the detailed descriptions of our projects can be accessed through the MIPS WWW server (http://mips.helmholtz-muenchen.de)... - An evolutionary and structural characterization of mammalian protein complex organizationPhilip Wong
Helmholtz Center Munich German Research Center for Environmental Health GmbH, Institute of Bioinformatics and Systems Biology, Ingolstadter Landstrasse 1, Neuherberg, Germany
BMC Genomics 9:629. 2008..Combining CORUM with other resources, we assembled a dataset of over 2700 mammalian complexes. The availability of a rich information resource allows us to search for organizational properties concerning these complexes... - OREST: the online resource for EST analysisBrigitte Waegele
Institute for Bioinformatics and Systems Biology MIPS, Helmholtz Zentrum Munchen German Research Center for Environmental Health GmbH, Ingolstadter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 36:W140-4. 2008..OREST was successfully applied for the identification and functional characterization of more than 3000 EST sequences of the common marmoset monkey (Callithrix jacchus) as part of an international collaboration... - Resources and tools for investigating biomolecular networks in mammalsSabine Dietmann
Institute for Bioinformatics, GSF National Research Center for Health and Environment, Ingolstadter Landstrasse 1, 85764 Neuherberg, Germany
Curr Pharm Des 12:3723-34. 2006.... - MIPS bacterial genomes functional annotation benchmark datasetIgor V Tetko
Institute for Bioinformatics MIPS, GSF National Research Center for Environment and Health, Ingolstaedter Landstrasse 1, D 85764 Neuherberg, Germany
Bioinformatics 21:2520-1. 2005..Different program settings and incompatible protocols make a comparison of the analyzed methods difficult... - MicroRNAs coordinately regulate protein complexesSteffen Sass
MIPS, Institute for Bioinformatics and System Biology, Helmholtz Center Munich, German Research Center for Environmental Health, Ingolstädter Landstraße 1, D 85764 Neuherberg, Germany
BMC Syst Biol 5:136. 2011..Interactions between targets of co-expressed miRNAs (including miRNA clusters) have not yet been systematically investigated... - Tissue-specific target analysis of disease-associated microRNAs in human signaling pathwaysAndreas Kowarsch
Institute for Bioinformatics and Systems Biology, Helmholtz Zentrum Munchen, Neuherberg, Germany
PLoS ONE 5:e11154. 2010..Our analysis provides systematic insights into the interaction of disease-associated microRNAs and signaling pathways and uncovers differences in cellular locations and process types of microRNA targets and disease-associated proteins... - The MIPS mammalian protein-protein interaction databasePhilipp Pagel
Institute for Bioinformatics/MIPS, GSF-National Research Center for Environment and Health, , 85764 Neuherberg, Germany
Bioinformatics 21:832-4. 2005..The content is based on published experimental evidence that has been processed by human expert curators. We provide the full dataset for download and a flexible and powerful web interface for users with various requirements... - The FunCat, a functional annotation scheme for systematic classification of proteins from whole genomesAndreas Ruepp
Institute for Bioinformatics MIPS, GSF National Research Center for Environment and Health, Ingolstaedter Landstrasse 1, D 85764 Neuherberg, Germany
Nucleic Acids Res 32:5539-45. 2004..Over the last decade, the FunCat has been established as a robust and stable annotation scheme that offers both, meaningful and manageable functional classification as well as ease of perception...