Catalog of Genetic Variations (SNPs and CNVs) and Analysis Tools for Thai Genetic Studies
Conference proceedings article
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Publication Details
Author list: Sattara Hattirat, Chumpol Ngamphiw, Anunchai Assawamakin, Jonathan Chan, Sissades Tongsima
Publication year: 2010
Title of series: Communications in Computer and Information Science book series (CCIS,volume 115)
Volume number: 115
Start page: 130
End page: 140
Number of pages: 11
Abstract
The Thailand SNP database (ThaiSNPdb) initiative is the first attempt to catalog both Single Nucleotide Polymorphisms (SNPs) and Copy Number Variations (CNVs) from 32 healthy individuals in the central region of Thailand using the 5th generation Affymetrix SNP genotyping arrays. The aim of this initiative is to facilitate genetic studies of Thais by systematically cataloging large-scale population genetic polymorphism data from Thais combining with data from other different populations. Comparative views of both SNPs and CNVs were made possible with standard comprehensive and interactive graphic technology, called GBrowse. The database allows easy browsing and comparisons of genetic polymorphism data from Thai populations as well as others, which were retrieved from several public variation databases including NCBI dbSNP, HapMap3, JSNP and Database of Genomic Variant (DGV). As a result, this database can be considered as one of the largest collections of SNPs and CNVs. Furthermore, to enable genetic analysis, ThaiSNPdb offers three common genetic tools including linkage disequilibrium (LD), haplotype blocks and tagging SNPs. In conclusion, ThaiSNPdb is an invaluable platform to support the studies in personalized medicine, forensic sciences and even cytogenetic studies in the case of CNV analyses. ThaiSNPdb is available on the Internet and can be publicly accessed at http://www.biotec.or.th/thaisnp .
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