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DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra

(2014) JOURNAL OF PROTEOME RESEARCH. 13(2). p.1143-1146
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Bioinformatics: from nucleotids to networks (N2N)
Abstract
De nova sequencing is a popular technique in proteomics for identifying peptides from tandem mass spectra without having to rely on a protein sequence database. Despite the strong potential of de nova sequencing algorithms, their adoption threshold remains quite high. We here present a user-friendly and lightweight graphical user interface called DeNovoGUI for running parallelized versions of the freely available de nova sequencing software PepNovo+, greatly simplifying the use of de novo sequencing in proteomics. Our platform-independent software is freely available under the permissible Apache2 open source license. Source code, binaries, and additional documentation are available at http://denovogui.googlecode.com.
Keywords
peptide identification, SPECTROMETRY-BASED PROTEOMICS, PepNovo, mass spectrometry, bioinforrnatics, de novo, ALGORITHMS, PEPTIDES

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Citation

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Chicago
Muth, Thilo, Lisa Weilnböck, Erdmann Rapp, Christian G Huber, Lennart Martens, Marc Vaudel, and Harald Barsnes. 2014. “DeNovoGUI: An Open Source Graphical User Interface for De Novo Sequencing of Tandem Mass Spectra.” Journal of Proteome Research 13 (2): 1143–1146.
APA
Muth, T., Weilnböck, L., Rapp, E., Huber, C. G., Martens, L., Vaudel, M., & Barsnes, H. (2014). DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra. JOURNAL OF PROTEOME RESEARCH, 13(2), 1143–1146.
Vancouver
1.
Muth T, Weilnböck L, Rapp E, Huber CG, Martens L, Vaudel M, et al. DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra. JOURNAL OF PROTEOME RESEARCH. 2014;13(2):1143–6.
MLA
Muth, Thilo, Lisa Weilnböck, Erdmann Rapp, et al. “DeNovoGUI: An Open Source Graphical User Interface for De Novo Sequencing of Tandem Mass Spectra.” JOURNAL OF PROTEOME RESEARCH 13.2 (2014): 1143–1146. Print.
@article{4259743,
  abstract     = {De nova sequencing is a popular technique in proteomics for identifying peptides from tandem mass spectra without having to rely on a protein sequence database. Despite the strong potential of de nova sequencing algorithms, their adoption threshold remains quite high. We here present a user-friendly and lightweight graphical user interface called DeNovoGUI for running parallelized versions of the freely available de nova sequencing software PepNovo+, greatly simplifying the use of de novo sequencing in proteomics. Our platform-independent software is freely available under the permissible Apache2 open source license. Source code, binaries, and additional documentation are available at http://denovogui.googlecode.com.},
  author       = {Muth, Thilo and Weilnb{\"o}ck, Lisa and Rapp, Erdmann and Huber, Christian G and Martens, Lennart and Vaudel, Marc and Barsnes, Harald},
  issn         = {1535-3893},
  journal      = {JOURNAL OF PROTEOME RESEARCH},
  keyword      = {peptide identification,SPECTROMETRY-BASED PROTEOMICS,PepNovo,mass spectrometry,bioinforrnatics,de novo,ALGORITHMS,PEPTIDES},
  language     = {eng},
  number       = {2},
  pages        = {1143--1146},
  title        = {DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra},
  url          = {http://dx.doi.org/10.1021/pr4008078},
  volume       = {13},
  year         = {2014},
}

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