Title |
Evaluating the performance of Affymetrix SNP Array 6.0 platform with 400 Japanese individuals
|
---|---|
Published in |
BMC Genomics, September 2008
|
DOI | 10.1186/1471-2164-9-431 |
Pubmed ID | |
Authors |
Nao Nishida, Asako Koike, Atsushi Tajima, Yuko Ogasawara, Yoshimi Ishibashi, Yasuka Uehara, Ituro Inoue, Katsushi Tokunaga |
Abstract |
With improvements in genotyping technologies, genome-wide association studies with hundreds of thousands of SNPs allow the identification of candidate genetic loci for multifactorial diseases in different populations. However, genotyping errors caused by genotyping platforms or genotype calling algorithms may lead to inflation of false associations between markers and phenotypes. In addition, the number of SNPs available for genome-wide association studies in the Japanese population has been investigated using only 45 samples in the HapMap project, which could lead to an inaccurate estimation of the number of SNPs with low minor allele frequencies. We genotyped 400 Japanese samples in order to estimate the number of SNPs available for genome-wide association studies in the Japanese population and to examine the performance of the current SNP Array 6.0 platform and the genotype calling algorithm "Birdseed". |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Chile | 3 | 5% |
Hong Kong | 1 | 2% |
United States | 1 | 2% |
Italy | 1 | 2% |
Unknown | 60 | 91% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 22 | 33% |
Student > Master | 9 | 14% |
Student > Ph. D. Student | 8 | 12% |
Student > Postgraduate | 5 | 8% |
Student > Bachelor | 4 | 6% |
Other | 11 | 17% |
Unknown | 7 | 11% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 38 | 58% |
Biochemistry, Genetics and Molecular Biology | 9 | 14% |
Medicine and Dentistry | 5 | 8% |
Computer Science | 1 | 2% |
Nursing and Health Professions | 1 | 2% |
Other | 2 | 3% |
Unknown | 10 | 15% |