The CGView Server: a comparative genomics tool for circular genomes.
The CGView Server: a comparative genomics tool for circular genomes.
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DOI：
10.1093/nar/gkn179
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发表时间：
2008-07-01
影响因子：
14.9
通讯作者：
Stothard P
中科院分区：
文献类型：
--
作者：
Grant JR;Stothard P
CGView服务器生成圆形基因组的图形地图，显示序列特征，碱基组成图，分析结果和序列相似性图。序列可以以原始、FASTA、GenBank或EMBL格式提供。附加的特征或分析信息可以以GFF（通用特征格式）文件的形式提交。服务器使用BLAST将一级序列与最多三个比较基因组或序列集进行比较。BLAST结果和特征信息被转换为显示整个序列的图形图，或感兴趣区域的扩展和更详细的视图。其中包括多个选项，用于控制显示哪些类型的要素以及如何绘制要素。CGView Server可用于可视化与任何细菌、质粒、叶绿体或线粒体基因组相关的特征，并可帮助识别保守的基因组片段、水平基因转移的实例以及基因拷贝数的差异。因为可以使用序列集合代替比较基因组，所以图谱也可以用于可视化由新获得的序列读数覆盖的已知基因组的区域。CGView服务器可以在http://stothard.afns.ualberta.ca/cgview_server/上访问
The CGView Server generates graphical maps of circular genomes that show sequence features, base composition plots, analysis results and sequence similarity plots. Sequences can be supplied in raw, FASTA, GenBank or EMBL format. Additional feature or analysis information can be submitted in the form of GFF (General Feature Format) files. The server uses BLAST to compare the primary sequence to up to three comparison genomes or sequence sets. The BLAST results and feature information are converted to a graphical map showing the entire sequence, or an expanded and more detailed view of a region of interest. Several options are included to control which types of features are displayed and how the features are drawn. The CGView Server can be used to visualize features associated with any bacterial, plasmid, chloroplast or mitochondrial genome, and can aid in the identification of conserved genome segments, instances of horizontal gene transfer, and differences in gene copy number. Because a collection of sequences can be used in place of a comparison genome, maps can also be used to visualize regions of a known genome covered by newly obtained sequence reads. The CGView Server can be accessed at http://stothard.afns.ualberta.ca/cgview_server/
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影响因子：
7
作者：
Schwartz, S;Zhang, Z;Miller, W
通讯作者：
Miller, W
DOI：
10.1093/bfgp/elm025
发表时间：
2007-09-01
期刊：
Briefings in Functional Genomics & Proteomics
影响因子：
--
作者：
Spudich, Giulietta;Fernandez-Suarez, Xose M.;Birney, Ewan
通讯作者：
Birney, Ewan
影响因子：
7
作者：
Stein, LD;Mungall, C;Lewis, S
通讯作者：
Lewis, S
影响因子：
5.8
作者：
Stothard, P;Wishart, DS
通讯作者：
Wishart, DS
影响因子：
14.9
作者：
Wheeler, David L.;Barrett, Tanya;Benson, Dennis A.;Bryant, Stephen H.;Canese, Kathi;Chetvernin, Vyacheslav;Church, Deanna M.;DiCuccio, Michael;Edgar, Ron;Federhen, Scott;Feolo, Michael;Geer, Lewis Y.;Helmberg, Wolfgang;Kapustin, Yuri;Khovayko, Oleg;Landsman, David;Lipman, David J.;Madden, Thomas L.;Maglott, Donna R.;Miller, Vadim;Ostell, James;Pruitt, Kim D.;Schuler, Gregory D.;Shumway, Martin;Sequeira, Edwin;Sherry, Steven T.;Sirotkin, Karl;Souvorov, Alexandre;Starchenko, Grigory;Tatusov, Roman L.;Tatusova, Tatiana A.;Wagner, Lukas;Yaschenko, Eugene
通讯作者：
Yaschenko, Eugene