The K0MP2 data are a critical resource for biomedical research, will inform human disease studies, be integrated with existing resources and will be accessed, analyzed and mined by mouse biologists, translational researchers, clinicians and wider biomedical community. The MIP2 project will support the K0MP2 project by providing the Data Coordination Centre which will process the complex phenotypic data provide access via a web portal. The DCC aims are to collect and store valid data as it appears throughout the project, to provide unified access to these data for specialist and non specialist users via the web and programmatically, and to support complex queries and statistical analyses. The project has several distinct components and tasks: The Pheno-DCC will validate, perform quality control and manage data acquired dynamically from centres. This will ensure data are robust and allow progress tracking of data at all stages of processing. Specialist data wranglers will manage this process and will interact with the users of the data to ensure user interfaces support the needs of the varied community who will access these data. The statistical and annotation pipelines and environment which will analyze raw data and summarize data for each mutant and assay for presentation to users. A supporting core database, the Core Data Archive, which will store all project data, provide programmatic access, push data to external resources such as NCBI and the Jackson Laboratory and critically provide data for the user interfaces. A single point of entry web portal hosted at www.knockoutmouse.org which will present data to users. I, integrate data from parallel mouse phenotyping projects and provide access to a statistical analysis and query environment Integrate K0MP2 data via biomedical databases at the EBI to ensure that the data are widely distributed to mouse biologists and other scientists .

Public Health Relevance

Research into the lab mouse informs human health by using the mouse as model system for human disease, and as a platform for determining gene function. The MIP2 project will process data generated by studying mutant mice, preserve this data, ensure it is statistically meaningful and integrate it with data generated by clinical studies on humans, and provided it via the web for use by the scientific community.

Agency
National Institute of Health (NIH)
Institute
National Human Genome Research Institute (NHGRI)
Type
Specialized Center--Cooperative Agreements (U54)
Project #
5U54HG006370-02
Application #
8331940
Study Section
Special Emphasis Panel (ZHG1-HGR-M (M2))
Program Officer
Fletcher, Colin F
Project Start
2011-09-16
Project End
2013-07-31
Budget Start
2012-08-01
Budget End
2013-07-31
Support Year
2
Fiscal Year
2012
Total Cost
$2,000,000
Indirect Cost
$144,985
Name
European Molecular Biology Laboratory
Department
Type
DUNS #
321691735
City
Heidelberg
State
Country
Germany
Zip Code
69117
Koscielny, Gautier; Yaikhom, Gagarine; Iyer, Vivek et al. (2014) The International Mouse Phenotyping Consortium Web Portal, a unified point of access for knockout mice and related phenotyping data. Nucleic Acids Res 42:D802-9
Oellrich, Anika; Jacobsen, Julius; Papatheodorou, Irene et al. (2014) Using association rule mining to determine promising secondary phenotyping hypotheses. Bioinformatics 30:i52-59
Karp, Natasha A; Speak, Anneliese O; White, Jacqueline K et al. (2014) Impact of temporal variation on design and analysis of mouse knockout phenotyping studies. PLoS One 9:e111239
Oellrich, Anika; Sanger Mouse Genetics Project; Smedley, Damian (2014) Linking tissues to phenotypes using gene expression profiles. Database (Oxford) 2014:bau017