STEM: A software tool for large-scale proteomic data analyses

被引：48

作者：

Shinkawa, T

Taoka, M

Yamauchi, Y

Ichimura, T

Kaji, H

Takahashi, N

Isobe, T

机构：

[1] Tokyo Metropolitan Univ, Grad Sch Sci, Dept Chem,MEXT, Pioneer Res Genome Frontier,Integrated Proteom Sy, Tokyo 1920397, Japan

[2] Tokyo Metropolitan Univ, Grad Sch Sci, Dept Chem, Biochem Lab, Tokyo 1920397, Japan

[3] Tokyo Univ Agr & Technol, Dept Appl Biol Sci, Tokyo 1838509, Japan

[4] Univ Tokyo, Inst Med Sci, Div Proteom Res, Minato Ku, Tokyo 1088639, Japan

来源：

JOURNAL OF PROTEOME RESEARCH | 2005年 / 4卷 / 05期

关键词：

software; bioinformatics; data analysis; quantitation; liquid chromatography; mass spectrometry; proteomics;

D O I：

10.1021/pr050167x

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

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.

引用

页码：1826 / 1831

页数：6

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