MatGAT: An application that generates similarity/identity matrices using protein or DNA sequences
MatGAT: An application that generates similarity/identity matrices using protein or DNA sequences
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DOI：
10.1186/1471-2105-4-29
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发表时间：
2003-07-10
影响因子：
3
通讯作者：
Smalley, J
中科院分区：
文献类型：
--
作者：
Campanella, JJ;Bitincka, L;Smalley, J
背景：可获得的蛋白质和DNA序列信息量的快速增长已经使研究人员几乎不堪重负。现在人们可以获得如此多的信息，以至于高质量、功能性的基因分析和分类已经成为许多实验室的主要目标。结果：我们开发了MatGAT(矩阵全局比对工具)，这是一个简单易用的计算机应用程序，它可以为DNA或蛋白质序列生成相似性/同一性矩阵，而不需要预先比对数据。结论：与其他软件相比，该程序的优点是它是开源的免费软件，可以同时分析大量的序列，可以同时可视化序列比对和相似性/同一性数值，使用全局比对进行计算，并已格式化为可在Unix和Microsoft Windows操作系统下运行。我们目前正在完成该程序的基于Macintosh的版本。
Background: The rapid increase in the amount of protein and DNA sequence information available has become almost overwhelming to researchers. So much information is now accessible that high-quality, functional gene analysis and categorization has become a major goal for many laboratories. To aid in this categorization, there is a need for non-commercial software that is able to both align sequences and also calculate pairwise levels of similarity/identity.Results: We have developed MatGAT ( Matrix Global Alignment Tool), a simple, easy to use computer application that generates similarity/identity matrices for DNA or protein sequences without needing pre-alignment of the data.Conclusions: The advantages of this program over other software are that it is open-source freeware, can analyze a large number of sequences simultaneously, can visualize both sequence alignment and similarity/identity values concurrently, employs global alignment in calculations, and has been formatted to run under both the Unix and the Microsoft Windows Operating Systems. We are presently completing the Macintosh-based version of the program.