Gambin Anna, Wojtalewicz Piotr
Institute of Informatics, Warsaw University, Banacha 2, 02-097, Warsaw, Poland.
Bioinformatics. 2007 Jul 1;23(13):1686-8. doi: 10.1093/bioinformatics/btm136. Epub 2007 Apr 25.
We present a software tool CTX-BLAST that incorporates contextual alignment model into the popular protein BLAST program. Our alignment tool allows us to investigate the effect of context-dependency in the protein alignment much more efficient than using previous dynamic algorithms. The software makes use of non-symmetric contextual substitution tables and calculates the statistical significance of a given alignment according to the contextual statistical model.
CTX-BLAST is an open source software freely available from www.sourceforge.net/projects/CTX-BLAST. A program for statistical estimation of E-value parameters and the contextual substitution table CTX-BLOSUM62 are also provided.
Supplementary data are available at Bioinformatics online.
我们展示了一款软件工具CTX-BLAST，它将上下文比对模型整合到了广受欢迎的蛋白质BLAST程序中。我们的比对工具使我们能够比使用先前的动态算法更高效地研究蛋白质比对中上下文依赖性的影响。该软件利用非对称上下文替换表，并根据上下文统计模型计算给定比对的统计显著性。
CTX-BLAST是一款开源软件，可从www.sourceforge.net/projects/CTX-BLAST免费获取。还提供了一个用于E值参数统计估计的程序以及上下文替换表CTX-BLOSUM62。
补充数据可在《生物信息学》在线获取。
