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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

Please use this url to cite or link to this publication:

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.
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.
Chicago author-date
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.
Chicago author-date (all authors)
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.
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.
IEEE
[1]
T. Muth et al., “DeNovoGUI: an open source graphical user interface for de novo sequencing of tandem mass spectra,” JOURNAL OF PROTEOME RESEARCH, vol. 13, no. 2, pp. 1143–1146, 2014.
@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 Weilnböck, 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},
  keywords     = {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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