Shinkawa Takashi, Taoka Masato, Yamauchi Yoshio, Ichimura Tohru, Kaji Hiroyuki, Takahashi Nobuhiro, Isobe Toshiaki
Integrated Proteomics System Project, Pioneer Research on Genome the Frontier, MEXT, c/o Department of Chemistry, Graduate School of Science, Tokyo Metropolitan University, 1-1 Minami-osawa, Hachioji-shi, Tokyo 192-0397, Japan.
J Proteome Res. 2005 Sep-Oct;4(5):1826-31. doi: 10.1021/pr050167x.
We describe the software, STEM (STrategic Extractor for Mascot's results), which efficiently processes large-scale mass spectrometry-based proteomics data. V (View)-mode evaluates the Mascot peptide identification dataset, removes unreliable candidates and redundant assignments, and integrates the results with key information in the experiment. C (Comparison)-mode compares peptide coverage among multiple datasets and displays proteins commonly/specifically found therein, and processes data for quantitative studies that utilize conventional isotope tags or tags having a smaller mass difference. STEM significantly improves throughput of proteomics study.
我们描述了一款名为STEM（Mascot结果的战略提取器）的软件，它能高效处理基于大规模质谱的蛋白质组学数据。V（视图）模式评估Mascot肽段鉴定数据集，去除不可靠的候选物和重复的匹配，并将结果与实验中的关键信息整合。C（比较）模式比较多个数据集中的肽段覆盖情况，展示其中共同/特有的蛋白质，并处理利用传统同位素标签或质量差异较小的标签进行定量研究的数据。STEM显著提高了蛋白质组学研究的通量。
