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Plate IV.619 · Publications

MIPS: curated databases and comprehensive secondary data resources in 2010

Article in Nucleic Acids Research, 24 November 2010.

Open accessDiabetes, Children, Risk

  1. H. Werner Mewes
  2. Andreas Ruepp
  3. Fabian Theis
  4. Thomas Rattei
  5. Mathias Walter
  6. Dmitrij Frishman
  7. Karsten Suhre
  8. Manuel Spannagl
  9. Klaus F.X. Mayer
  10. Volker Stümpflen
  11. Alexey Antonov

Abstract

The Munich Information Center for Protein Sequences (MIPS at the Helmholtz Center for Environmental Health, Neuherberg, Germany) has many years of experience in providing annotated collections of biological data. Selected data sets of high relevance, such as model genomes, are subjected to careful manual curation, while the bulk of high-throughput data is annotated by automatic means. High-quality reference resources developed in the past and still actively maintained include Saccharomyces cerevisiae, Neurospora crassa and Arabidopsis thaliana genome databases as well as several protein interaction data sets (MPACT, MPPI and CORUM). More recent projects are PhenomiR, the database on microRNA-related phenotypes, and MIPS PlantsDB for integrative and comparative plant genome research. The interlinked resources SIMAP and PEDANT provide homology relationships as well as up-to-date and consistent annotation for 38,000,000 protein sequences. PPLIPS and CCancer are versatile tools for proteomics and functional genomics interfacing to a database of compilations from gene lists extracted from literature. A novel literature-mining tool, EXCERBT, gives access to structured information on classified relations between genes, proteins, phenotypes and diseases extracted from Medline abstracts by semantic analysis. 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).

Cite

@article{mewes2010mips,
  title = {{MIPS: curated databases and comprehensive secondary data resources in 2010}},
  author = {Mewes, H. Werner and Ruepp, Andreas and Theis, Fabian and Rattei, Thomas and Walter, Mathias and Frishman, Dmitrij and Suhre, Karsten and Spannagl, Manuel and Mayer, Klaus F.X. and Stümpflen, Volker and Antonov, Alexey},
  journal = {Nucleic Acids Research},
  publisher = {Oxford University Press (OUP)},
  year = {2010},
  month = nov,
  doi = {10.1093/nar/gkq1157},
  url = {https://doi.org/10.1093/nar/gkq1157},
  pmid = {21109531},
  pmcid = {PMC3013725}
}
.bib file