(mentions CMT) IGG: A Tool to Integrate GeneChips for Genetic Studies

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Bioinformatics. 2007 Sep 14

IGG: A Tool to Integrate GeneChips for Genetic Studies.

Miao-Xin L, Lin J, S L H, You-Qiang S, C SP.

Department of Biochemistry, Psychiatry and Medicine, the Centre for

Reproduction, Development and Growth, and Genome Research Center,

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.