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DoGSD: the dog and wolf genome SNP database
The rapid advancement of next-generation sequencing technology has generated a deluge of genomic data from domesticated dogs and their wild ancestor, grey wolves, which have simultaneously broadened our understanding of domestication and diseases that are shared by humans and dogs. To address the sc...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2014
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383968/ https://www.ncbi.nlm.nih.gov/pubmed/25404132 http://dx.doi.org/10.1093/nar/gku1174 |
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author | Bai, Bing Zhao, Wen-Ming Tang, Bi-Xia Wang, Yan-Qing Wang, Lu Zhang, Zhang Yang, He-Chuan Liu, Yan-Hu Zhu, Jun-Wei Irwin, David M. Wang, Guo-Dong Zhang, Ya-Ping |
author_facet | Bai, Bing Zhao, Wen-Ming Tang, Bi-Xia Wang, Yan-Qing Wang, Lu Zhang, Zhang Yang, He-Chuan Liu, Yan-Hu Zhu, Jun-Wei Irwin, David M. Wang, Guo-Dong Zhang, Ya-Ping |
author_sort | Bai, Bing |
collection | PubMed |
description | The rapid advancement of next-generation sequencing technology has generated a deluge of genomic data from domesticated dogs and their wild ancestor, grey wolves, which have simultaneously broadened our understanding of domestication and diseases that are shared by humans and dogs. To address the scarcity of single nucleotide polymorphism (SNP) data provided by authorized databases and to make SNP data more easily/friendly usable and available, we propose DoGSD (http://dogsd.big.ac.cn), the first canidae-specific database which focuses on whole genome SNP data from domesticated dogs and grey wolves. The DoGSD is a web-based, open-access resource comprising ∼19 million high-quality whole-genome SNPs. In addition to the dbSNP data set (build 139), DoGSD incorporates a comprehensive collection of SNPs from two newly sequenced samples (1 wolf and 1 dog) and collected SNPs from three latest dog/wolf genetic studies (7 wolves and 68 dogs), which were taken together for analysis with the population genetic statistics, Fst. In addition, DoGSD integrates some closely related information including SNP annotation, summary lists of SNPs located in genes, synonymous and non-synonymous SNPs, sampling location and breed information. All these features make DoGSD a useful resource for in-depth analysis in dog-/wolf-related studies. |
format | Online Article Text |
id | pubmed-4383968 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-43839682015-04-08 DoGSD: the dog and wolf genome SNP database Bai, Bing Zhao, Wen-Ming Tang, Bi-Xia Wang, Yan-Qing Wang, Lu Zhang, Zhang Yang, He-Chuan Liu, Yan-Hu Zhu, Jun-Wei Irwin, David M. Wang, Guo-Dong Zhang, Ya-Ping Nucleic Acids Res Database Issue The rapid advancement of next-generation sequencing technology has generated a deluge of genomic data from domesticated dogs and their wild ancestor, grey wolves, which have simultaneously broadened our understanding of domestication and diseases that are shared by humans and dogs. To address the scarcity of single nucleotide polymorphism (SNP) data provided by authorized databases and to make SNP data more easily/friendly usable and available, we propose DoGSD (http://dogsd.big.ac.cn), the first canidae-specific database which focuses on whole genome SNP data from domesticated dogs and grey wolves. The DoGSD is a web-based, open-access resource comprising ∼19 million high-quality whole-genome SNPs. In addition to the dbSNP data set (build 139), DoGSD incorporates a comprehensive collection of SNPs from two newly sequenced samples (1 wolf and 1 dog) and collected SNPs from three latest dog/wolf genetic studies (7 wolves and 68 dogs), which were taken together for analysis with the population genetic statistics, Fst. In addition, DoGSD integrates some closely related information including SNP annotation, summary lists of SNPs located in genes, synonymous and non-synonymous SNPs, sampling location and breed information. All these features make DoGSD a useful resource for in-depth analysis in dog-/wolf-related studies. Oxford University Press 2014-11-17 2015-01-28 /pmc/articles/PMC4383968/ /pubmed/25404132 http://dx.doi.org/10.1093/nar/gku1174 Text en © The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by-nc/4.0/ (https://creativecommons.org/licenses/by-nc/4.0/) ), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com |
spellingShingle | Database Issue Bai, Bing Zhao, Wen-Ming Tang, Bi-Xia Wang, Yan-Qing Wang, Lu Zhang, Zhang Yang, He-Chuan Liu, Yan-Hu Zhu, Jun-Wei Irwin, David M. Wang, Guo-Dong Zhang, Ya-Ping DoGSD: the dog and wolf genome SNP database |
title | DoGSD: the dog and wolf genome SNP database |
title_full | DoGSD: the dog and wolf genome SNP database |
title_fullStr | DoGSD: the dog and wolf genome SNP database |
title_full_unstemmed | DoGSD: the dog and wolf genome SNP database |
title_short | DoGSD: the dog and wolf genome SNP database |
title_sort | dogsd: the dog and wolf genome snp database |
topic | Database Issue |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383968/ https://www.ncbi.nlm.nih.gov/pubmed/25404132 http://dx.doi.org/10.1093/nar/gku1174 |
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