MPact: the MIPS protein interaction resource on yeast

By U. Güldener, M. Münsterkötter, Matthias Oesterheld, P. Pagel, Andreas Ruepp, Hans-Werner Mewes, V. Stümpflen. Nucleic Acids Res., 2005

375 citations recorded by the source corpus.

In recent years, the Munich Information Center for Protein Sequences (MIPS) yeast protein–protein interaction (PPI) dataset has been used in numerous analyses of protein networks and has been called a gold standard because of its quality and comprehensiveness [H. Yu, N. M. Luscombe, H. X. Lu, X. Zhu, Y. Xia, J. D. Han, N. Bertin, S. Chung, M. Vidal and M. Gerstein (2004) Genome Res., 14, 1107–1118]. MPact and the yeast protein localization catalog provide information related to the proximity of proteins in yeast. Beside the integration of high-throughput data, information about experimental evidence for PPIs in the literature was compiled by experts adding up to 4300 distinct PPIs connecting 1500 proteins in yeast. As the interaction data is a complementary part of CYGD, interactive mapping of data on other integrated data types such as the functional classification catalog [A. Ruepp, A. Zollner, D. Maier, K. Albermann, J. Hani, M. Mokrejs, I. Tetko, U. Güldener, G. Mannhaupt, M. Münsterkötter and H. W. Mewes (2004) Nucleic Acids Res., 32, 5539–5545] is possible. A survey of signaling proteins and comparison with pathway data from KEGG demonstrates that based on these manually annotated data only an extensive overview of the complexity of this functional network can be obtained in yeast. The implementation of a web-based PPI-analysis tool allows analysis and visualization of protein interaction networks and facilitates integration of our curated data with high-throughput datasets. 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 .

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/543cf8c078eee670dcfc62e3fec8ed55e6237b57

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

Citations in the corpus

Deciphering Protein–Protein Interactions. Part II. Computational Methods to Predict Protein and Domain Interaction Partners (2007, methodology): “Guldener U, Munsterkotter M, Oesterheld M, Pagel P, Ruepp A, et al. (2006) MPact: The MIPS protein interaction resource on yeast.”
PINA v2.0: mining interactome modules (2011, background): “The first version of PINA (11) has established a non-redundant PPI database, updated quarterly based on the integration of protein interaction data from six publicly available, manually curated databases: IntAct (12), MINT (13), BioGRID (14), DIP (15), HPRD (16) and MIPS MPact (17).”
Deciphering Protein–Protein Interactions. Part I. Experimental Techniques and Databases (2007, methodology): “MIPS is often used as a standard of truth database for evaluating the quality of data and the accuracy of interaction prediction methods.”
MIPS: analysis and annotation of proteins from whole genomes in 2005 (2005, background): “This is in line with the requirements for PSI-MI compliant annotation (8).”
The IntAct molecular interaction database in 2010 (2009, background): “As a result, many resources (28), including IntAct, aim to capture molecular interaction data from the scientific literature, through direct data deposition, expert curation, automated approaches like literature mining (29), or a combination of these (30); acting in isolation, or in coordination, fo”
CORUM: the comprehensive resource of mammalian protein complexes—2009 (2007, methodology): “In addition to a manually curated dataset of protein complexes (5), tag-based high-throughput approaches were performed in order to deﬁne the yeast complexome (6,7).”
ChemProt: a disease chemical biology database (2010, background): “The current interactome contains 428 429 unique protein–proteins interactions derived from source databases such as BIND (34), GRID (35), MINT (36), dip_full (37), HPRD (38), intact (39), mppi (40), MPact (41), Reactome (42) and KEGG (43).”
IntAct—open source resource for molecular interaction data (2006, neutral): “To share the curation workload, avoid redundant curation and ensure consistency in annotation policies, five public databases, BIND (14), MINT (15), DIP (16), MPact (17) and IntAct, have formed the IMEx consortium (IMEx—http://imex.”
Data Mining Techniques for the Life Sciences (2010, methodology): “As the database is part of CYGD, the rich set of information in CYGD is directly accessible from MPact.”
CORUM: the comprehensive resource of mammalian protein complexes (2007, background): “Comparable to theMIPS reference dataset of protein complexes from yeast, CORUM intends to serve as a reference for mammalian protein complexes.”