VISTA: computational tools for comparative genomics
VISTA: computational tools for comparative genomics
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DOI：
10.1093/nar/gkh458
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发表时间：
2004-07-01
影响因子：
14.9
通讯作者：
Dubchak, I
中科院分区：
文献类型：
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作者：
Frazer, KA;Pachter, L;Dubchak, I
不同物种DNA序列的比较是鉴定基因组功能元件的基本方法。在这里，我们描述了VISTA系列的工具，以协助生物学家在执行这项任务。我们在http://www-gsd.lbl.gov/vista/上的第一个VISTA服务器于2000年夏天推出，旨在比对长基因组序列，并将这些比对与相关的功能注释可视化。目前，VISTA网站包括多个比较基因组学工具，并为用户提供丰富的功能，以使用VISTA浏览器浏览大型脊椎动物基因组和其他生物体组的预先计算的全基因组比对，将他们自己的感兴趣序列提交到多个VISTA服务器进行各种类型的比较分析，并获得一组心血管基因的详细比较分析结果。我们通过分析编码驱动蛋白家族成员3A（KIF3A）蛋白的人类5号染色体上的180 kb间隔来说明VISTA位点的能力。
Comparison of DNA sequences from different species is a fundamental method for identifying functional elements in genomes. Here, we describe the VISTA family of tools created to assist biologists in carrying out this task. Our first VISTA server at http://www-gsd.lbl.gov/vista/ was launched in the summer of 2000 and was designed to align long genomic sequences and visualize these alignments with associated functional annotations. Currently the VISTA site includes multiple comparative genomics tools and provides users with rich capabilities to browse pre-computed whole-genome alignments of large vertebrate genomes and other groups of organisms with VISTA Browser, to submit their own sequences of interest to several VISTA servers for various types of comparative analysis and to obtain detailed comparative analysis results for a set of cardiovascular genes. We illustrate capabilities of the VISTA site by the analysis of a 180 kb interval on human chromosome 5 that encodes for the kinesin family member 3A (KIF3A) protein.