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Bioinformatics. 2007 Nov 15;23(22):3105-7. Epub 2007 Sep 14.

IGG: A tool to integrate GeneChips for genetic studies.

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Department of Biochemistry, The University of Hong Kong, Pokfulam, Hong Kong and Hunan Business College, Changsha, Hunan 410205, China.


To facilitate genetic studies using high-throughput genotyping technologies, we have developed an open source tool to integrate genotype data across the Affymetrix and Illumina platforms. It can efficiently integrate a large amount of data from various GeneChips, add genotypes of the HapMap Project into a specific project, flexibly trim and export the integrated data with different formats of popular genetic analysis tools, and highly control the quality of genotype data. Furthermore, this tool has sufficiently simplified its usage through its user-friendly graphic interface and is independent of third-party databases. IGG has successfully been applied to a genome-wide linkage scan in a Charcot-Marie-Tooth disease pedigree by integrating three types of GeneChips and HapMap project genotypes.

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