ChickVD: a sequence variation database for the chicken genome.
ChickVD: a sequence variation database for the chicken genome.
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DOI：
10.1093/nar/gki092
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发表时间：
2005-01-01
影响因子：
14.9
通讯作者：
Wang J
中科院分区：
文献类型：
--
作者：
Wang J;He X;Ruan J;Dai M;Chen J;Zhang Y;Hu Y;Ye C;Li S;Cong L;Fang L;Liu B;Li S;Wang J;Burt DW;Wong GK;Yu J;Yang H;Wang J
在对鸡（Gallus gallus）基因组进行测序的同时，北京基因组研究所领导了一个由来自中国、美国、英国、瑞典、荷兰和德国的科学家组成的国际团队，通过从国内品种中取样 DNA，绘制了整个鸡基因组中广泛的 DNA 序列变异图谱。使用红原鸡基因组序列作为参考，我们鉴定了 310 万个非冗余 DNA 序列变异。为了促进我们的数据在鸟类遗传学中的应用，并为功能和进化研究提供基础，我们创建了“鸡变异数据库”（ChickVD）。图形化 MapView 显示在基因注释和其他特征的背景下映射到鸡基因组上的变体，包括遗传标记、性状基因座、cDNA、人类疾病基因的鸡直向同源物和原始序列轨迹。 ChickVD 还使用合作机构和公共资源的数据存储数量性状基因座的信息。我们的数据可以通过搜索引擎和基于同源性的BLAST搜索来查询。 ChickVD 可通过 http://chicken.genomics.org.cn 公开访问。
Working in parallel with the efforts to sequence the chicken (Gallus gallus) genome, the Beijing Genomics Institute led an international team of scientists from China, USA, UK, Sweden, The Netherlands and Germany to map extensive DNA sequence variation throughout the chicken genome by sampling DNA from domestic breeds. Using the Red Jungle Fowl genome sequence as a reference, we identified 3.1 million non-redundant DNA sequence variants. To facilitate the application of our data to avian genetics and to provide a foundation for functional and evolutionary studies, we created the ‘Chicken Variation Database’ (ChickVD). A graphical MapView shows variants mapped onto the chicken genome in the context of gene annotations and other features, including genetic markers, trait loci, cDNAs, chicken orthologs of human disease genes and raw sequence traces. ChickVD also stores information on quantitative trait loci using data from collaborating institutions and public resources. Our data can be queried by search engine and homology-based BLAST searches. ChickVD is publicly accessible at http://chicken.genomics.org.cn.