Allele Frequency Database in Asians including Japanese and Chinese:

To make Gene-Centric Even-Spacing Common SNPs Probes available for High Efficiency Case-Control Association Study:

Japanese Page   

[SNPs table]
Chr.  1  2  3  4  5  6  7  8  9  10  11  12  13  14  15  16  17  18  19  20  21  22  X  Y

Introduction

  Genome Science is directing from "Structural Genomics" to "Functional Genomics".  After the publication of a rough draft of human genome sequence in 2000, the human genome sequence has recently completed on April 14, 2003.  The genome research has got into the Post-Sequence (Post-Genome) era.  Enormous efforts are being poured to find the polymorphisms to determine various phenotypes based on the "case-control association studies".  Owing to the discovery of millions of SNPs (Single Nucleotide Polymorphisms) by the world-wide efforts, the search for the disease susceptibility genes or drug response-determining genes and their polymorphisms has now become feasible for multi-factorial "common diseases".   The susceptibility genes for "common diseases" including diabetes, rheumatoid arthritis, gout, schizophrenia, cancers etc are now being disclosed.  SNPs have given the researchers the completely new concept and tool to find the association between individual genotypes with various phenotypes.  The discovery of the genetic basis for individual differences will open the genome-information based drug discovery, genetic diagnosis, and individualized medicine.  

  In case of diabetes as the representative multi-factorial disease, the increasing number of diabetes in Japan is threatening the medical cost and the society.  The number of diabetic patients now reached about 7 million patients and 7 millions of those with impaired glucose tolerance making a total number of 14 millions with a threat of diabetes.  This is similar to the epidemic increasing tendency in a total number of 150 million diabetic patients in the whole world.  The increase of patients with severe diabetic complications in Japan is reflected by the fact that  3,000 diabetic patients newly become blind per year and that 12,000 diabetic patients are introduced to hemodialysis every year in Japan.  

  It is thus critically important to establish the high-efficiency methods for association study to find disease susceptibility genes and their responsible SNPs or haplotypes.  We have found that "Even-Spacing Common SNPs Probes" affords researchers the most efficient way of finding disease susceptibility genes with a relatively small number of case and control subjects of about 400, respectively.  

  We hope to contribute to the discovery of disease susceptibility genes and the development of genome information- based medicine by establishing Gene-Centric Even-Spacing Common SNPs Probes.  

Tokushima ASNPs (Asian SNPs)

  Database named "Tokushima ASNPs" supplies minor allele frequencies of Gene-Centric Even-Spacing Common SNPs in Japanese and Chinese.  These Minor Allele Frequency data can be used to select the most efficient SNP probes for the high-efficiency Case-Control association study.  

  The concepts of Gene-Cntric Even-Spacing Common SNPs are examined in the figure below.  The idea of "Gene-Centric" means the gene region spanning 10 kb above the start of an open reading frame and 10 kb below the stop codon.  The idea of "Common SNPs" means the Minor Allele Frequency >= 15% in 46 healthy Japanese or Chinese subjects.  The purpose of this database is finally to make "Gene-Centric Even-spacing Common Shared SNPs probes" available for association study in Japanese and Chinese.  The total number of SNPs is scheduled to reach more than 100,000 sometime in summer of 2003, which will be published in this database.  

FTP Server

FTP Server

The position information  and gene information on SNPs are based on Celera Discovery System 3.8.

SNP Data

This table summarizes the number and percentage of SNPs showing the minor allele frequency larger than 15% in every chromosome in 4 populations including Caucasian, African American, Chinese, and Japanese.  Among 91,276 SNPs, 64% to 77% of them are common SNPs.  

Related Pages

Applied Biosystems

Disclaimer and Liability

  Institute for Genome Research The University of Tokushima make no representations or warranties regarding the content or accuracy of the information and also make no represents or warranties of merchantability or fitness for a particular purpose and accept no responsibility for any consequences of the receipt or use of the information. 

Div. Genetic Information ()

Institute for Genome Research The University of Tokushima ()

Japanese Page

Introduction | FTP Server | SNP Data | Related Page |  Div. Genetic Information
Inst. for Genome Research, Univ. Tokushima

Institute for Genome Research, The University of Tokushima. All Rights Reserved.