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. 2009 Jan;37(Database issue):D642-6.
doi: 10.1093/nar/gkn722. Epub 2008 Oct 31.

Michigan molecular interactions r2: from interacting proteins to pathways

V Glenn Tarcea  1 , Terry Weymouth, Alex Ade, Aaron Bookvich, Jing Gao, Vasudeva Mahavisno, Zach Wright, Adriane Chapman, Magesh Jayapandian, Arzucan Ozgür, Yuanyuan Tian, Jim Cavalcoli, Barbara Mirel, Jignesh Patel, Dragomir Radev, Brian Athey, David States, H V Jagadish
Affiliations

Michigan molecular interactions r2: from interacting proteins to pathways

V Glenn Tarcea et al. Nucleic Acids Res. 2009 Jan.

Abstract

Molecular interaction data exists in a number of repositories, each with its own data format, molecule identifier and information coverage. Michigan molecular interactions (MiMI) assists scientists searching through this profusion of molecular interaction data. The original release of MiMI gathered data from well-known protein interaction databases, and deep merged this information while keeping track of provenance. Based on the feedback received from users, MiMI has been completely redesigned. This article describes the resulting MiMI Release 2 (MiMIr2). New functionality includes extension from proteins to genes and to pathways; identification of highlighted sentences in source publications; seamless two-way linkage with Cytoscape; query facilities based on MeSH/GO terms and other concepts; approximate graph matching to find relevant pathways; support for querying in bulk; and a user focus-group driven interface design. MiMI is part of the NIH's; National Center for Integrative Biomedical Informatics (NCIBI) and is publicly available at: http://mimi.ncibi.org.

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Figures

Figure 1.
Figure 1.
The new results page in MiMI r2.
Figure 2.
Figure 2.
Natural language processing identification of sentences within a document dealing with information of interest.
See this image and copyright information in PMC

References

    1. Maglott D, Ostell J, Pruitt KD, Tatusova T. Entrez Gene: gene-centered information at NCBI. Nucleic Acids Res. 2005;33:D54–D58. - PMC - PubMed
    1. Liebel U, Kindler B, Pepperkok R. Bioinformatic ‘Harvester’: a search engine for genome-wide human, mouse, and rat protein resources. Methods Enzymol. 2005;404:19–26. - PubMed
    1. Birkland A, Yona G. The BIOZON Database: a hub of heterogeneous Biological Data. Nucleic Acids Res. 2006;34:D235–D242. - PMC - PubMed
    1. Davidson SB, Crabtree J, Brunk BP, Schug J, Tannen V, Overton GC, Stoeckert CJ., Jr K2/Kleisli and GUS: experiments in integrated access to genomic data sources. IBM Syst. J. 2001;40:512–531.
    1. Jayapandian M, Chapman A, Tarcea VG, Yu C, Elkiss A, Ianni A, Liu B, Nandi A, Santos C, Andrews P, et al. Michigan Molecular Interactions (MiMI): Putting the Jigsaw Puzzle Together. Nucleic Acids Res. 2007;35:D566–D571. - PMC - PubMed

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