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2004
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SPIDER: Software for Protein Identification from Sequence Tags with De Novo Sequencing Error

10 years 8 months ago
SPIDER: Software for Protein Identification from Sequence Tags with De Novo Sequencing Error
For the identification of novel proteins using MS/MS, de novo sequencing software computes one or several possible amino acid sequences (called sequence tags) for each MS/MS spectrum. Those tags are then used to match, accounting amino acid mutations, the sequences in a protein database. If the de novo sequencing gives correct tags, the homologs of the proteins can be identified by this approach and software such as MS-BLAST is available for the matching. However, de novo sequencing very often gives only partially correct tags. The most common error is that a segment of amino acids is replaced by another segment with approximately the same masses. We developed a new efficient algorithm to match sequence tags with errors to database sequences for the purpose of protein and peptide identification. A software package, SPIDER, was developed and made available on Internet for free public use. This paper describes the algorithms and features of the SPIDER software.
Yonghua Han, Bin Ma, Kaizhong Zhang
Added 20 Aug 2010
Updated 20 Aug 2010
Type Conference
Year 2004
Where CSB
Authors Yonghua Han, Bin Ma, Kaizhong Zhang
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