VISTA - computational tools for comparative genomics

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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, submit their own sequences of ... continued below

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Frazer, Kelly A.; Pachter, Lior; Poliakov, Alexander; Rubin,Edward M. & Dubchak, Inna January 1, 2004.

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Description

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, submit their own sequences of interest to several VISTA servers for various types of comparative analysis, and obtain detailed comparative analysis results for a set of cardiovascular genes. We illustrate capabilities of the VISTA site by the analysis of a 180 kilobase (kb) interval on human chromosome 5 that encodes for the kinesin family member3A (KIF3A) protein.

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  • Journal Name: Nucleic Acids Research; Journal Volume: 32; Related Information: Journal Publication Date: 07/2004

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  • Report No.: LBNL--54962
  • Grant Number: DE-AC02-05CH11231
  • Office of Scientific & Technical Information Report Number: 860307
  • Archival Resource Key: ark:/67531/metadc788922

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  • January 1, 2004

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  • Dec. 3, 2015, 9:30 a.m.

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  • April 1, 2016, 7:55 p.m.

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Frazer, Kelly A.; Pachter, Lior; Poliakov, Alexander; Rubin,Edward M. & Dubchak, Inna. VISTA - computational tools for comparative genomics, article, January 1, 2004; Berkeley, California. (digital.library.unt.edu/ark:/67531/metadc788922/: accessed August 20, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.