Abstract
The International Mouse Phenotyping Consortium (IMPC) web portal (http://www.mousephenotype.org) provides the biomedical community with a unified point of access to mutant mice and rich collection of related emerging and existing mouse phenotype data. IMPC mouse clinics worldwide follow rigorous highly structured and standardized protocols for the experimentation, collection and dissemination of data. Dedicated ‘data wranglers’ work with each phenotyping center to collate data and perform quality control of data. An automated statistical analysis pipeline has been developed to identify knockout strains with a significant change in the phenotype parameters. Annotation with biomedical ontologies allows biologists and clinicians to easily find mouse strains with phenotypic traits relevant to their research. Data integration with other resources will provide insights into mammalian gene function and human disease. As phenotype data become available for every gene in the mouse, the IMPC web portal will become an invaluable tool for researchers studying the genetic contributions of genes to human diseases.
Highlights
The goal of the International Mouse Phenotyping Consortium (IMPC) is to generate and phenotypically characterize knockout mutant strains for every proteincoding gene in the mouse [1,2]
The IMPC was established as a large-scale coordinated effort of mouse clinics worldwide to undertake broad-based primary phenotyping of mutant mouse strains that carry a null mutation in a protein-coding gene [3,4]
This program builds on the collection of mutant embryonic stem (ES) cells available from the International Knockout Mouse Consortium (IKMC) [5] and pilot programs that have established a set of robust high-throughput phenotyping assays [6,7]
Summary
The goal of the International Mouse Phenotyping Consortium (IMPC) is to generate and phenotypically characterize knockout mutant strains for every proteincoding gene in the mouse [1,2]. The ‘corneal opacity’ page available at http:// www.mousephenotype.org/data/phenotypes/MP:0001314 displays a list of all mouse strains in the database associated with this MP term. Mousephenotype.org/impress/soap/server?wsdl) and a RESTful interface to the mouse alleles, experimental results and genotype–phenotype associations from the statistical analysis We provide both RESTful and BioMart interfaces to access details of mouse production from the portal (http://www.mousephenotype.org/imits). The data exported by the mouse clinics are validated against the required procedure and parameter specifications as defined in the SOPs (Data Coordination Centre component), and the supplied values are checked against the corresponding contextspecific databases; e.g. check for existence of a mouse strain in the IMPC Mouse Tracking System (iMITS). 2 079 607 mouse phenotype data, we are able to streamline the workflow
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