Michigan Molecular Interactions (MiMI)

Michigan Molecular Interactions (MiMI) allows users to easily explore an extensive database of protein interactions, pathways and genes. The data in MiMI comes from multiple external and internal data sources including DIP and BIND and NCIBIs NLP literature mining efforts. MiMI employs deep merging techniques to identity to identify objects that are the same across data source. Once identity has been determined, the entries are merged and their provenance is recorded. Since datasets often contain contradictory or overlapping information, the deep-merging for integration corrects for duplications, synonyms, and redundant interactions across identifiers. The Deep merging provenance model tracks where each piece of data came from and what processes have been performed upon it. The Integrated data reside in a relational database.

Through the MimiWeb interface, you can set query conditions such as designated species or sources, perform free text searches, and/or upload large sets of gene symbols or geneids (see the help page for details). MimiWeb displays results in way that allows for further exploration and vetting. Users can choose to sort and group items of interest, easily drill down to details, and easily link out to external knowledge sources. New with V3.0, users can view positions of gene symbol tags within PubMed abstracts (see document details from gene detail page or interaction detail page, or from the document list for a gene or interaction). MimiWeb is integrated in with the NCIBI Suite of Tools, allowing users to easily carry requests from one tool to the next. Users can display and manipulate protein/gene interactions and associated biological attributes in networks visualized through the MiMI Plugin for Cytoscape graphing tool, view literature mined using NLP techniques by linking out to GiN, or easily browse the network of interactions, in NetBrowser and perform subgraph matches by inputing selected sub-graphs to SAGA.

MiMI is useful for knowledge production and discovery. With it, users can easily explore comprehensive biological relationships associated with candidate genes; gather and analyze data in one place, view summaries and citations on the proteins/genes and protein interactions of interest, or easily link out to other specialized tools. The MiMI database and MimiWeb interface are important entry points into the NCIBI Suite of Tools.

Current Version

3.1

Intended Audiences

Analysts

Tool Category

Information Retrieval , Integration/ Mapping , Pathways/Networks