The human genome browser at UCSC
The human genome browser at UCSC
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DOI：
10.1101/gr.229102
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发表时间：
2002-06-01
期刊：
影响因子：
7
通讯作者：
Haussler, D
中科院分区：
文献类型：
--
作者：
Kent, WJ;Sugnet, CW;Haussler, D
随着脊椎动物基因组序列接近完成和研究重新聚焦于它们的分析，有效的基因组注释显示问题变得至关重要。一个成熟的网络工具，可以快速可靠地显示任何规模的基因组的任何请求部分，连同几十个对齐的注释轨道，提供在http://www.genome.ucsc.edu。这个浏览器显示组装序列和间隙，mRNA和表达的序列标签比对，多基因预测，跨物种同源性，单核苷酸多态性，序列标记位点，辐射杂交数据，转座子重复，以及更多作为一堆共同注册的轨道。基于文本和序列的搜索提供了对任何特定兴趣区域的快速和精确访问。从个别特征的次要链接导致序列细节和补充场外数据库。一半的注释轨迹是在加州大学圣克鲁兹分校从公开可用的序列数据中计算出来的；其余部分由世界各地的合作者提供。用户可以稳定地将自己的自定义曲目添加到浏览器中，用于教育或研究目的。介绍了浏览器的概念和技术框架、底层MYSQL数据库以及总体使用方法。该网站目前每天为超过3000个不同的用户提供超过50,000个页面。
As vertebrate genome sequences near completion and research refocuses to their analysis, the issue of effective genome annotation display becomes critical. A mature web tool for rapid and reliable display of any requested portion of the genome at any scale, together with several dozen aligned annotation tracks, is provided at http:/ /genome.ucsc.edu. This browser displays assembly contigs and gaps, mRNA and expressed sequence tag alignments, Multiple gene predictions, cross-species homologies, single nucleotide polymorphisnis, sequence-tagged sites, radiation hybrid data, transposon repeats, and more as a stack of coregistered tracks. Text and sequence-based searches provide quick and precise access to any region of specific interest. Secondary links from individual features lead to sequence details and Supplementary off-site databases. One-half of the annotation tracks are computed at the University of California, Santa Cruz from publicly available sequence data; collaborators worldwide provide the rest. Users can stably add their own custom tracks to the browser for educational or research purposes. The conceptual and technical framework of the browser, its underlying MYSQL database, and overall use are described. The web site currently serves over 50,000 pages per day to over 3000 different users.