PrediSi pipeline

PrediSi specifications

Information


Unique identifier OMICS_03882
Name PrediSi
Alternative name Prediction of Signal peptides
Interface Web user interface
Restrictions to use None
Input data Some amino acid sequences.
Input format FASTA
Output data The overall estimation of whether the investigated amino acid sequence possesses a signal peptide (Y/N), the underlying score and the putative signal peptidase cleavage position.
Output format HTML, MS-EXCEL, TXT, XML, CSV
Computer skills Basic
Stability Stable
Maintained Yes

Maintainers


  • person_outline Dieter Jahn <>
  • person_outline Karsten Hiller <>

Information


Unique identifier OMICS_03882
Name PrediSi
Alternative name Prediction of Signal peptides
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainers


  • person_outline Dieter Jahn <>
  • person_outline Karsten Hiller <>

Publication for Prediction of Signal peptides

PrediSi citations

 (2)
2011
PMCID: 3134979

[…] (the size of the smallest full coding sequences in each gene family). because the signal peptide portion of obps has a high substitution rate, we removed these regions (identified using the predisi program [hiller et al. 2004]) before conducting the analyses. the protein sequences were multiply aligned using mafft v6.624b (katoh et al. 2005) (e-ins-i with blosum30 matrix, 10,000 […]

2008
PMCID: 2536512

[…] interpolated variable order motifs (ivom) as described by vernikos and parkhill [24]. clustered regularly interspaced short palindromic repeats (crisprs) were identified with crispr-finder [25]. the prediction of signal peptides (sp) was performed using signalp v 3.0 [26] . the protein sequences were considered sp-positive where all the nn-scores were above the default cut-off using […]

PrediSi institution(s)
Institut fur Mikrobiologie, Technische Universitat Braunschweig, Braunschweig, Germany; Fachbereich fur Informatik, Fachhochschule Wolfenbuttel, Germany
PrediSi funding source(s)
Supported by the German Bundesministerium fur Bildung und Forschung (BMBF) for the Bioinformatics Competence Center Intergenomics (Grant No. 031U110A/031U210A).

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