DBParser: Web-based software for shotgun proteomic data analyses
DBParser: Web-based software for shotgun proteomic data analyses
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DOI：
10.1021/pr049920x
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发表时间：
2004-09-01
影响因子：
4.4
通讯作者：
Kowalak, JA
中科院分区：
文献类型：
--
作者：
Yang, XY;Dondeti, V;Kowalak, JA
我们描述了一个基于网络的程序，称为‘DBParser’，用于快速筛选、合并和比较搜索引擎从多个LC-MS/MS多肽分析中得到的结果。DBParser使用简约的原则来巩固多余的蛋白质分配，并获得与在一个或一系列实验中观察到的所有分配的肽序列一致的最简洁的蛋白质集。由此产生的报告总结了来自多维实验的多肽和蛋白质鉴定，这些实验可能包含单个数据集，或者合并来自一组数据集的数据，所有这些都与单个分析样本相关。此外，多个实验的结果可以在识别共同或不同特征的报告中进行比较，每个实验可能包含几个数据集。DBParser主动链接到初级质谱学数据和公共在线数据库，如NCBI、GO和Swiss-Prot，以便为生物学家和生物化学家构建特定背景的报告。
We describe a web-based program called 'DBParser' for rapidly culling, merging, and comparing sequence search engine results from multiple LC-MS/MS peptide analyses. DBParser employs the principle of parsimony to consolidate redundant protein assignments and derive the most concise set of proteins consistent with all of the assigned peptide sequences observed in an experiment or series of experiments. The resulting reports summarize peptide and protein identifications from multidimensional experiments that may contain a single data set or combine data from a group of data sets, all related to a single analytical sample. Additionally, the results of multiple experiments, each of which may contain several data sets, can be compared in reports that identify features that are common or different. DBParser actively links to the primary mass spectral data and to public online databases such as NCBI, GO, and Swiss-Prot in order to structure contextually specific reports for biologists and biochemists.