DigiPINS: A database for vertebrate exonic single nucleotide polymorphisms and its application to cancer association studies
- 作者：Vincent Navratil ; Simon Penel ; Sté ; phane Delmotte ; Dominique Mouchiroud ; Christian Gautier ; Abdel Aouacheria
- 关键词：Single nucleotide polymorphism ; Expressed sequenced tag ; Comparative genomics ; Cancer association ; Web server
- 刊名：Biochimie
- 出版年：2008
- 期刊代码：24_03009084
- 类别：bio
- 出版时间：April 2008
- 卷：90
- 期：4
- 页码：563-569
- 文件大小：869 K
摘要
Single nucleotide polymorphisms (SNPs), which are the most abundant form of genetic variations in numerous organisms, have emerged as important tools for the study of complex genetic traits and deciphering of genome evolution. High-throughput genome sequencing projects worldwide provide an unprecedented opportunity for whole-genome SNP analysis in a variety of species. To facilitate SNP discovery in vertebrates, we have developed a web-based, user-friendly, and fully automated application, DigiPINS, for genome-wide identification of exonic SNPs from EST data. Currently, the database can be used to the mining of exonic SNPs in six complete genomes (Homo sapiens, Mus musculus, Rattus norvegicus, Canis familiaris, Gallus gallus and Danio rerio). In addition to providing information on sequence conservation, DigiPINS allows compilation of comprehensive sets of polymorphisms within cancer candidate genes or identification of novel cancer markers, making it potentially useful for cancer association studies. The DigiPINS server is available via the internet at http://pbil.univ-lyon1.fr/gem/DigiPINS/query_DigiPINS.php.