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BioMart as an integration solution for the International Knockout Mouse Consortium
Darren J Oakley1, Vivek Iyer, William C Skarnes
1The Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1HH.
Database : the Journal of Biological Databases and Curation
|September 21, 2011
Summary
The BioMart system offers integrated access to International Knockout Mouse Consortium (IKMC) data, enabling researchers to find knockout vectors, stem cells, and mice for gene function studies.
Area of Science:
- Genomics
- Bioinformatics
- Mouse models
Background:
- The International Knockout Mouse Consortium (IKMC) is generating knockout mouse models for all protein-coding genes.
- Accessing and integrating diverse mouse genetic data is crucial for functional genomics research.
Purpose of the Study:
- To describe the BioMart data management system for accessing IKMC data.
- To showcase the integrated functionalities for selecting mouse knockout resources.
Main Methods:
- Utilizing the BioMart system for data integration and access.
- Leveraging gene targeting and gene trapping approaches for IKMC data generation.
Main Results:
- BioMart provides unified access to IKMC knockout vectors, ES cells, and mice.
- Integrated data includes gene annotation, expression, phenotype, and disease information.
Conclusions:
- The BioMart portal facilitates the identification and acquisition of valuable mouse knockout resources.
- These resources are essential for elucidating gene function and roles in human diseases.
