PrediSi: prediction of signal peptides and their cleavage positions

Abstract

We have developed PrediSi (Prediction of Signal peptides), a new tool for predicting signal peptide sequences and their cleavage positions in bacterial and eukaryotic amino acid sequences. In contrast to previous prediction tools, our new software is especially useful for the analysis of large datasets in real time with high accuracy. PrediSi allows the evaluation of whole proteome datasets, which are currently accumulating as a result of numerous genome projects and proteomics experiments. The method employed is based on a position weight matrix approach improved by a frequency correction which takes in to consideration the amino acid bias present in proteins. The software was trained using sequences extracted from the most recent version of the SwissProt database. PrediSi is accessible via a web interface. An extra Java package was designed for the integration of PrediSi into other software projects. The tool is freely available on the World Wide Web at http://www.predisi.de.

Keywords

BiologySoftwareProteomeSignal peptideComputational biologyProtein methodsProteomicsWeb browserBioinformaticsProtein Sorting SignalsComputer sciencePeptide sequenceBiochemistryProgramming languageWorld Wide WebThe Internet

MeSH Terms

Bacterial ProteinsEukaryotic CellsInternetPeptidesProtein Sorting SignalsProteomeReproducibility of ResultsSequence AnalysisProteinSoftwareUser-Computer Interface

Affiliated Institutions

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Publication Info

Year: 2004
Type: article
Volume: 32
Issue: Web Server
Pages: W375-W379
Citations: 493
Access: Closed

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APA Style

                            
                                
                                    Karsten Hiller, 
                                
                                    Andreas Grote, 
                                
                                    Maurice Scheer
                                
                                et al.
                            
                            (2004). 
                            PrediSi: prediction of signal peptides and their cleavage positions. 
                            Nucleic Acids Research
                            , 32
                            (Web Server)
                            , W375-W379.
                            https://doi.org/10.1093/nar/gkh378
                        

Identifiers

DOI: 10.1093/nar/gkh378
PMID: 15215414
PMCID: PMC441516

Data Quality

Data completeness: 86%