Agrawal Ankit, Huang Xiaoqiu
Department of Computer Science, Iowa State University, Ames, IA 50011-1041, USA.
Bioinformatics. 2009 Apr 15;25(8):1082-3. doi: 10.1093/bioinformatics/btp089. Epub 2009 Feb 27.
We present an add-on to BLAST and PSI-BLAST programs to reorder their hits using pairwise statistical significance. Using position-specific substitution matrices to estimate pairwise statistical significance has been recently shown to give promising results in terms of retrieval accuracy, which motivates its use to refine PSI-BLAST results, since PSI-BLAST also constructs a position-specific substitution matrix for the query sequence during the search. The obvious advantage of the approach is more accurate estimates of statistical significance because of pairwise statistical significance, along with the advantage of BLAST/PSI-BLAST in terms of speed.
我们提出了一种BLAST和PSI-BLAST程序的附加组件，用于使用成对统计显著性对其命中结果进行重新排序。最近研究表明，使用位置特异性替换矩阵来估计成对统计显著性在检索准确性方面能产生有前景的结果，这促使我们利用它来优化PSI-BLAST结果，因为PSI-BLAST在搜索过程中也会为查询序列构建一个位置特异性替换矩阵。该方法的明显优势在于，由于成对统计显著性，能更准确地估计统计显著性，同时还具备BLAST/PSI-BLAST在速度方面的优势。
