MouseMine is a powerful new system for online access to mouse data from MGI (Mouse Genome Informatics). For more than 20 years, MGI has provided high-quality scientific data on the laboratory mouse, gathered and integrated from hundreds of sources. Over the years, MGI has provided an evolving set of tools for accessing those data, including an interactive web interface (WI), database reports downloaded from our ftp site, direct SQL access, and most recently, via data warehouse systems such as BioMart.

MouseMine represents a new generation of access to MGI data. Powered by InterMine, MouseMine offers flexible querying, numerous predefined query templates, a point-and-click interface for building your own queries or modifying a template, iterative refinement of results, built-in enrichment analysis, downloading in multiple formats, forwarding to Galaxy, and more.

Currently, MouseMine contains the following subset of MGI: the mouse genome catalog, including nomenclature, synonyms, database cross references, and genome coordinates; the mouse allele catalog, including spontaneous and engineered mutants and mutant cell lines; mouse strains and genotypes (aka models); mouse functional (GO) annotations, phenotype (MP) annotations, and disease (OMIM) annotations; human genes and their genome coordinates (via EntrezGene); mouse/human orthologies and mouse/mouse paralogies (via Homologene); mouse/mouse and mouse/human protein-protein interaction data from BioGrid and IntAct; plus publications, notes, and external database references.

MouseMine is member of InterMOD, a consortium of model organism databases dedicated to making cross-species data analysis easier, not only by using InterMine as a common platform, but through ongoing coordination and collaborative system development.

We want your feedback! Please send your questions, gripes, suggestions, and feature requests to mgi-help@jax.org.

MouseMine is supported by a subcontract to grant HG004834, entitled “InterMOD: Integrated Data and Tools to Support Model Organism Research.”

To cite MouseMine in a paper, please use Motenko, et. al., 2015. (PMID:26092688).