Document Detail


Interpreting peptide mass spectra by VEMS.
MedLine Citation:
PMID:  12692000     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Most existing Mass Spectra (MS) analysis programs are automatic and provide limited opportunity for editing during the interpretation. Furthermore, they rely entirely on publicly available databases for interpretation. VEMS (Virtual Expert Mass Spectrometrist) is a program for interactive analysis of peptide MS/MS spectra imported in text file format. Peaks are annotated, the monoisotopic peaks retained, and the b-and y-ion series identified in an interactive manner. The called peptide sequence is searched against a local protein database for sequence identity and peptide mass. The report compares the calculated and the experimental mass spectrum of the called peptide. The program package includes four accessory programs. VEMStrans creates protein databases in FASTA format from EST or cDNA sequence files. VEMSdata creates a virtual peptide database from FASTA files. VEMSdist displays the distribution of masses up to 5000 Da. VEMSmaldi searches singly charged peptide masses against the local database.
Authors:
R Matthiesen; M Lundsgaard; K G Welinder; G Bauw
Publication Detail:
Type:  Journal Article    
Journal Detail:
Title:  Bioinformatics (Oxford, England)     Volume:  19     ISSN:  1367-4803     ISO Abbreviation:  Bioinformatics     Publication Date:  2003 Apr 
Date Detail:
Created Date:  2003-04-14     Completed Date:  2003-12-16     Revised Date:  2006-11-15    
Medline Journal Info:
Nlm Unique ID:  9808944     Medline TA:  Bioinformatics     Country:  England    
Other Details:
Languages:  eng     Pagination:  792-3     Citation Subset:  IM    
Affiliation:
Department of Biotechnology, Aalborg University, Sohngaardsholmsvej 49, DK-9000 Aalborg, Denmark. rm@bio.auc.dk
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MeSH Terms
Descriptor/Qualifier:
Databases, Bibliographic
Databases, Protein*
Information Storage and Retrieval / methods*
Mass Spectrometry / methods*
Molecular Weight
Peptides / chemistry*,  classification
Sequence Alignment / methods*
Sequence Analysis, Protein / methods*
Software*
Chemical
Reg. No./Substance:
0/Peptides

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine


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