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Author: Wang, J. He, X. Ruan, J. Dai, M. Chen, J. Zhang, Y. Hu, Y. Ye, C. Li, S. Cong, L. Fang, L. Liu, B. Burt, D. Wong, G. Yu, J. Yang,

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D438–D441 Nucleic Acids Research, 2005, Vol.
33, Database issue doi:10.1093-nar-gki092 ChickVD: a sequence variation database for the chicken genome Jing Wang1, Ximiao He2,3, Jue Ruan2,3, Mingtao Dai2, Jie Chen2, Yong Zhang1,2, Yafeng Hu2, Chen Ye2, Shengting Li2, Lijuan Cong2, Lin Fang2, Bin Liu2, Songgang Li1,2, Jian Wang2, David W.
Burt4, Gane Ka-Shu Wong2,5, Jun Yu2,6, Huanming Yang2,6 and Jun Wang1,2,7,8,* 1 Received August 14, 2004; Revised and Accepted October 12, 2004 ABSTRACT INTRODUCTION 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. Chicken (Gallus gallus) is an important model organism for biomedical research, the study of embryology and development (1,2), aging (3), quantitative trait loci (QTL) analysis (4), in addition to being a major food source.
Through the comprehensive study of sequence polymorphisms in the chicken, significant progress can be made in understanding the phenoty...





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