M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species.
M-GCAT: interactively and efficiently constructing large-scale multiple genome comparison frameworks in closely related species.
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DOI：
10.1186/1471-2105-7-433
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发表时间：
2006-10-05
影响因子：
3
通讯作者：
Messeguer X
中科院分区：
文献类型：
--
作者：
Treangen TJ;Messeguer X
由于最近全基因组鸟枪测序和组装技术的进步，解码生物体DNA的财务成本已经大大降低，导致最近基因组测序项目的爆炸性增长。相关基因组数据的这种增加将允许通过多个全基因组比较来深入研究密切相关物种的进化。为了方便这种比较，我们提出了一个交互式的多基因组比较和比对工具M-GCAT，它可以在密切相关的物种中有效地构建多个基因组比较框架。M-GCAT能够在标准计算机上在几分钟内比较和识别多达20个密切相关细菌物种的高度保守区域，并在一小时内比较和识别多达90个细菌物种(包含从已发表的15个肠道细菌基因组中克隆出来的75个基因组)。M-GCAT还结合了一个新颖的比较基因组数据可视化界面，允许用户全局和局部检查和检查保守区域和基因注释。M-GCAT是一种交互式比较基因组学工具，非常适合于快速生成多个基因组比较框架和密切相关物种之间的比对。M-GCAT可免费下载，供学术和非商业使用，网址为：。
Due to recent advances in whole genome shotgun sequencing and assembly technologies, the financial cost of decoding an organism's DNA has been drastically reduced, resulting in a recent explosion of genomic sequencing projects. This increase in related genomic data will allow for in depth studies of evolution in closely related species through multiple whole genome comparisons. To facilitate such comparisons, we present an interactive multiple genome comparison and alignment tool, M-GCAT, that can efficiently construct multiple genome comparison frameworks in closely related species. M-GCAT is able to compare and identify highly conserved regions in up to 20 closely related bacterial species in minutes on a standard computer, and as many as 90 (containing 75 cloned genomes from a set of 15 published enterobacterial genomes) in an hour. M-GCAT also incorporates a novel comparative genomics data visualization interface allowing the user to globally and locally examine and inspect the conserved regions and gene annotations. M-GCAT is an interactive comparative genomics tool well suited for quickly generating multiple genome comparisons frameworks and alignments among closely related species. M-GCAT is freely available for download for academic and non-commercial use at: .
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影响因子：
14.9
作者：
Florea, L;McClelland, M;Miller, W
通讯作者：
Miller, W
影响因子：
9.5
作者：
Chain, Patrick;Kurtz, Stefan;Slezak, Tom
通讯作者：
Slezak, Tom
影响因子：
5.8
作者：
Grasso, C;Lee, C
通讯作者：
Lee, C
影响因子：
5.8
作者：
Carver, TJ;Rutherford, KM;Parkhill, J
通讯作者：
Parkhill, J
影响因子：
7
作者：
Bray, N;Pachter, L
通讯作者：
Pachter, L