Duncan Dexter T, Craig Robertson, Link Andrew J
Department of Microbiology and Immunology, Vanderbilt University School of Medicine, Nashville, TN 37232, USA.
J Proteome Res. 2005 Sep-Oct;4(5):1842-7. doi: 10.1021/pr050058i.
A method for the rapid correlation of tandem mass spectra to a list of protein sequences in a database has been developed. The combination of the fast and accurate computational search algorithm, X!Tandem, and a Linux cluster parallel computing environment with PVM or MPI, significantly reduces the time required to perform the correlation of tandem mass spectra to protein sequences in a database. A file of tandem mass spectra is divided into a specified number of files, each containing an equal number of the spectra from the larger file. These files are then searched in parallel against a protein sequence database. The results of each parallel output file are collated into one file for viewing through a web interface. Thousands of spectra can be searched in an accurate, practical, and time effective manner. The source code for running Parallel Tandem utilizing either PVM or MPI on Linux operating system is available from http://www.thegpm.org. This source code is made available under Artistic License from the authors.
一种将串联质谱快速关联到数据库中蛋白质序列列表的方法已被开发出来。快速且准确的计算搜索算法X!Tandem与带有PVM或MPI的Linux集群并行计算环境相结合，显著减少了将串联质谱与数据库中蛋白质序列进行关联所需的时间。串联质谱文件被分成指定数量的文件，每个文件包含来自较大文件的等量光谱。然后针对蛋白质序列数据库并行搜索这些文件。每个并行输出文件的结果被整理到一个文件中，以便通过网络界面查看。数以千计的光谱能够以准确、实用且高效的方式进行搜索。在Linux操作系统上利用PVM或MPI运行并行串联质谱的源代码可从http://www.thegpm.org获取。该源代码由作者根据艺术许可提供。
