These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

529 related articles for article (PubMed ID: 25951428)

  • 1. IPeak: An open source tool to combine results from multiple MS/MS search engines.
    Wen B; Du C; Li G; Ghali F; Jones AR; Käll L; Xu S; Zhou R; Ren Z; Feng Q; Xu X; Wang J
    Proteomics; 2015 Sep; 15(17):2916-20. PubMed ID: 25951428
    [TBL] [Abstract][Full Text] [Related]  

  • 2. In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.
    Audain E; Uszkoreit J; Sachsenberg T; Pfeuffer J; Liang X; Hermjakob H; Sanchez A; Eisenacher M; Reinert K; Tabb DL; Kohlbacher O; Perez-Riverol Y
    J Proteomics; 2017 Jan; 150():170-182. PubMed ID: 27498275
    [TBL] [Abstract][Full Text] [Related]  

  • 3. SearchGUI: An open-source graphical user interface for simultaneous OMSSA and X!Tandem searches.
    Vaudel M; Barsnes H; Berven FS; Sickmann A; Martens L
    Proteomics; 2011 Mar; 11(5):996-9. PubMed ID: 21337703
    [TBL] [Abstract][Full Text] [Related]  

  • 4. XTandem Parser: an open-source library to parse and analyse X!Tandem MS/MS search results.
    Muth T; Vaudel M; Barsnes H; Martens L; Sickmann A
    Proteomics; 2010 Apr; 10(7):1522-4. PubMed ID: 20140905
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Optimization of Search Engines and Postprocessing Approaches to Maximize Peptide and Protein Identification for High-Resolution Mass Data.
    Tu C; Sheng Q; Li J; Ma D; Shen X; Wang X; Shyr Y; Yi Z; Qu J
    J Proteome Res; 2015 Nov; 14(11):4662-73. PubMed ID: 26390080
    [TBL] [Abstract][Full Text] [Related]  

  • 6. A collection of open source applications for mass spectrometry data mining.
    Gallardo Ó; Ovelleiro D; Gay M; Carrascal M; Abian J
    Proteomics; 2014 Oct; 14(20):2275-9. PubMed ID: 25055762
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Compid: a new software tool to integrate and compare MS/MS based protein identification results from Mascot and Paragon.
    Lietzén N; Natri L; Nevalainen OS; Salmi J; Nyman TA
    J Proteome Res; 2010 Dec; 9(12):6795-800. PubMed ID: 20973569
    [TBL] [Abstract][Full Text] [Related]  

  • 8. IQuant: an automated pipeline for quantitative proteomics based upon isobaric tags.
    Wen B; Zhou R; Feng Q; Wang Q; Wang J; Liu S
    Proteomics; 2014 Oct; 14(20):2280-5. PubMed ID: 25069810
    [TBL] [Abstract][Full Text] [Related]  

  • 9. The OMSSAPercolator: an automated tool to validate OMSSA results.
    Wen B; Li G; Wright JC; Du C; Feng Q; Xu X; Choudhary JS; Wang J
    Proteomics; 2014 May; 14(9):1011-4. PubMed ID: 24504981
    [TBL] [Abstract][Full Text] [Related]  

  • 10. OMSSAGUI: An open-source user interface component to configure and run the OMSSA search engine.
    Tharakan R; Martens L; Van Eyk JE; Graham DR
    Proteomics; 2008 Jun; 8(12):2376-8. PubMed ID: 18563730
    [TBL] [Abstract][Full Text] [Related]  

  • 11. Open source libraries and frameworks for mass spectrometry based proteomics: a developer's perspective.
    Perez-Riverol Y; Wang R; Hermjakob H; Müller M; Vesada V; Vizcaíno JA
    Biochim Biophys Acta; 2014 Jan; 1844(1 Pt A):63-76. PubMed ID: 23467006
    [TBL] [Abstract][Full Text] [Related]  

  • 12. FDRAnalysis: a tool for the integrated analysis of tandem mass spectrometry identification results from multiple search engines.
    Wedge DC; Krishna R; Blackhurst P; Siepen JA; Jones AR; Hubbard SJ
    J Proteome Res; 2011 Apr; 10(4):2088-94. PubMed ID: 21222473
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Comparative database search engine analysis on massive tandem mass spectra of pork-based food products for halal proteomics.
    Amir SH; Yuswan MH; Aizat WM; Mansor MK; Desa MNM; Yusof YA; Song LK; Mustafa S
    J Proteomics; 2021 Jun; 241():104240. PubMed ID: 33894373
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Scavager: A Versatile Postsearch Validation Algorithm for Shotgun Proteomics Based on Gradient Boosting.
    Ivanov MV; Levitsky LI; Bubis JA; Gorshkov MV
    Proteomics; 2019 Feb; 19(3):e1800280. PubMed ID: 30537264
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Sensitive and Specific Spectral Library Searching with CompOmics Spectral Library Searching Tool and Percolator.
    Shiferaw GA; Gabriels R; Bouwmeester R; Van Den Bossche T; Vandermarliere E; Martens L; Volders PJ
    J Proteome Res; 2022 May; 21(5):1365-1370. PubMed ID: 35446579
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Tools (Viewer, Library and Validator) that facilitate use of the peptide and protein identification standard format, termed mzIdentML.
    Ghali F; Krishna R; Lukasse P; Martínez-Bartolomé S; Reisinger F; Hermjakob H; Vizcaíno JA; Jones AR
    Mol Cell Proteomics; 2013 Nov; 12(11):3026-35. PubMed ID: 23813117
    [TBL] [Abstract][Full Text] [Related]  

  • 17. PIA: An Intuitive Protein Inference Engine with a Web-Based User Interface.
    Uszkoreit J; Maerkens A; Perez-Riverol Y; Meyer HE; Marcus K; Stephan C; Kohlbacher O; Eisenacher M
    J Proteome Res; 2015 Jul; 14(7):2988-97. PubMed ID: 25938255
    [TBL] [Abstract][Full Text] [Related]  

  • 18. LFQuant: a label-free fast quantitative analysis tool for high-resolution LC-MS/MS proteomics data.
    Zhang W; Zhang J; Xu C; Li N; Liu H; Ma J; Zhu Y; Xie H
    Proteomics; 2012 Dec; 12(23-24):3475-84. PubMed ID: 23081734
    [TBL] [Abstract][Full Text] [Related]  

  • 19. An Optimized Informatics Pipeline for Mass Spectrometry-Based Peptidomics.
    Wu C; Monroe ME; Xu Z; Slysz GW; Payne SH; Rodland KD; Liu T; Smith RD
    J Am Soc Mass Spectrom; 2015 Dec; 26(12):2002-8. PubMed ID: 26015166
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Ursgal, Universal Python Module Combining Common Bottom-Up Proteomics Tools for Large-Scale Analysis.
    Kremer LP; Leufken J; Oyunchimeg P; Schulze S; Fufezan C
    J Proteome Res; 2016 Mar; 15(3):788-94. PubMed ID: 26709623
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 27.