MIPS

Curated databases and comprehensive secondary data resources in 2010

H. Werner Mewes, Andreas Ruepp, Fabian Theis, Thomas Rattei, Mathias Walter, Dmitrij Frishman, Karsten Suhre, Manuel Spannagl, Klaus F X Mayer, Volker Stümpflen, Alexey Antonov

Research output: Contribution to journalArticle

51 Citations (Scopus)

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).

Original languageEnglish
JournalNucleic Acids Research
Volume39
Issue numberSUPPL. 1
DOIs
Publication statusPublished - Jan 2011
Externally publishedYes

Fingerprint

Databases
Proteins
Genome
Plant Genome
Phenotype
Information Centers
Access to Information
Neurospora crassa
Environmental Health
Genomics
MicroRNAs
Arabidopsis
Semantics
Proteomics
Germany
Saccharomyces cerevisiae
Research
Genes
Datasets

ASJC Scopus subject areas

  • Genetics

Cite this

Mewes, H. W., Ruepp, A., Theis, F., Rattei, T., Walter, M., Frishman, D., ... Antonov, A. (2011). MIPS: Curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Research, 39(SUPPL. 1). https://doi.org/10.1093/nar/gkq1157

MIPS : Curated databases and comprehensive secondary data resources in 2010. / Mewes, H. Werner; Ruepp, Andreas; Theis, Fabian; Rattei, Thomas; Walter, Mathias; Frishman, Dmitrij; Suhre, Karsten; Spannagl, Manuel; Mayer, Klaus F X; Stümpflen, Volker; Antonov, Alexey.

In: Nucleic Acids Research, Vol. 39, No. SUPPL. 1, 01.2011.

Research output: Contribution to journalArticle

Mewes, HW, Ruepp, A, Theis, F, Rattei, T, Walter, M, Frishman, D, Suhre, K, Spannagl, M, Mayer, KFX, Stümpflen, V & Antonov, A 2011, 'MIPS: Curated databases and comprehensive secondary data resources in 2010', Nucleic Acids Research, vol. 39, no. SUPPL. 1. https://doi.org/10.1093/nar/gkq1157
Mewes HW, Ruepp A, Theis F, Rattei T, Walter M, Frishman D et al. MIPS: Curated databases and comprehensive secondary data resources in 2010. Nucleic Acids Research. 2011 Jan;39(SUPPL. 1). https://doi.org/10.1093/nar/gkq1157
Mewes, H. Werner ; Ruepp, Andreas ; Theis, Fabian ; Rattei, Thomas ; Walter, Mathias ; Frishman, Dmitrij ; Suhre, Karsten ; Spannagl, Manuel ; Mayer, Klaus F X ; Stümpflen, Volker ; Antonov, Alexey. / MIPS : Curated databases and comprehensive secondary data resources in 2010. In: Nucleic Acids Research. 2011 ; Vol. 39, No. SUPPL. 1.
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