Searching sequence databases via de novo peptide sequencing by tandem mass spectrometry
Searching sequence databases via de novo peptide sequencing by tandem mass spectrometry
复制标题
DOI：
10.1385/mb:22:3:301
复制
发表时间：
2002-11-01
影响因子：
2.6
通讯作者：
Taylor, JA
中科院分区：
文献类型：
--
作者：
Johnson, RS;Taylor, JA
有许多计算机程序可以将肽的串联质谱与数据库衍生的序列相匹配;然而，可能出现质谱数据无法与任何数据库序列相关联的情况。在这种情况下，可以自动从头推导序列，而无需求助于序列数据库，并且所得肽序列可以用于进行序列数据库的同源非精确搜索。本文详细介绍了如何实现一个称为“Lutefisk”的从头测序程序，以及一个经过修改以解决串联质谱数据中固有的序列模糊性的FASTA版本。
There are many computer programs that can match tandem mass spectra of peptides to database-derived sequences; however, situations can arise where mass spectral data cannot be correlated with any database sequence. In such cases, sequences can be automatically deduced de novo, without recourse to sequence databases, and the resulting peptide sequences can be used to perform homologous nonexact searches of sequence databases. This article describes details on how to implement both a de novo sequencing program called "Lutefisk," and a version of FASTA that has been modified to account for sequence ambiguities inherent in tandem mass spectrometry data.