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Journal Abstract Search

162 related items for PubMed ID: 34153189

  • 1. DIAproteomics: A Multifunctional Data Analysis Pipeline for Data-Independent Acquisition Proteomics and Peptidomics.
    Bichmann L, Gupta S, Rosenberger G, Kuchenbecker L, Sachsenberg T, Ewels P, Alka O, Pfeuffer J, Kohlbacher O, Röst H.
    J Proteome Res; 2021 Jul 02; 20(7):3758-3766. PubMed ID: 34153189
    [Abstract] [Full Text] [Related]

  • 2. Data-Independent Acquisition Peptidomics.
    Bichmann L, Gupta S, Röst H.
    Methods Mol Biol; 2024 Jul 02; 2758():77-88. PubMed ID: 38549009
    [Abstract] [Full Text] [Related]

  • 3. nf-encyclopedia: A Cloud-Ready Pipeline for Chromatogram Library Data-Independent Acquisition Proteomics Workflows.
    Allen C, Meinl R, Paez JS, Searle BC, Just S, Pino LK, Fondrie WE.
    J Proteome Res; 2023 Aug 04; 22(8):2743-2749. PubMed ID: 37417926
    [Abstract] [Full Text] [Related]

  • 4. QuantPipe: A User-Friendly Pipeline Software Tool for DIA Data Analysis Based on the OpenSWATH-PyProphet-TRIC Workflow.
    Wang D, Gan G, Chen X, Zhong CQ.
    J Proteome Res; 2021 Jan 01; 20(1):1096-1102. PubMed ID: 33091296
    [Abstract] [Full Text] [Related]

  • 5. Democratizing data-independent acquisition proteomics analysis on public cloud infrastructures via the Galaxy framework.
    Fahrner M, Föll MC, Grüning BA, Bernt M, Röst H, Schilling O.
    Gigascience; 2022 Feb 15; 11():. PubMed ID: 35166338
    [Abstract] [Full Text] [Related]

  • 6. ProtPipe: A Multifunctional Data Analysis Pipeline for Proteomics and Peptidomics.
    Li Z, Weller CA, Shah S, Johnson N, Hao Y, Roberts J, Bereda C, Klaisner S, Machado P, Fratta P, Petrucelli L, Prudencio M, Oskarsson B, Staff NP, Dickson DW, Cookson MR, Ward ME, Singleton AB, Nalls MA, Qi YA.
    bioRxiv; 2023 Dec 13. PubMed ID: 38168437
    [Abstract] [Full Text] [Related]

  • 7. iSwathX 2.0 for Processing DDA Spectral Libraries for DIA Data Analysis.
    Noor Z, Mohamedali A, Ranganathan S.
    Curr Protoc Bioinformatics; 2020 Jun 13; 70(1):e101. PubMed ID: 32478466
    [Abstract] [Full Text] [Related]

  • 8. Benefit of In Silico Predicted Spectral Libraries in Data-Independent Acquisition Data Analysis Workflows.
    Staes A, Mendes Maia T, Dufour S, Bouwmeester R, Gabriels R, Martens L, Gevaert K, Impens F, Devos S.
    J Proteome Res; 2024 Jun 07; 23(6):2078-2089. PubMed ID: 38666436
    [Abstract] [Full Text] [Related]

  • 9. Characterization of Cerebrospinal Fluid via Data-Independent Acquisition Mass Spectrometry.
    Barkovits K, Linden A, Galozzi S, Schilde L, Pacharra S, Mollenhauer B, Stoepel N, Steinbach S, May C, Uszkoreit J, Eisenacher M, Marcus K.
    J Proteome Res; 2018 Oct 05; 17(10):3418-3430. PubMed ID: 30207155
    [Abstract] [Full Text] [Related]

  • 10. Protein Contaminants Matter: Building Universal Protein Contaminant Libraries for DDA and DIA Proteomics.
    Frankenfield AM, Ni J, Ahmed M, Hao L.
    J Proteome Res; 2022 Sep 02; 21(9):2104-2113. PubMed ID: 35793413
    [Abstract] [Full Text] [Related]

  • 11. Data Dependent-Independent Acquisition (DDIA) Proteomics.
    Guan S, Taylor PP, Han Z, Moran MF, Ma B.
    J Proteome Res; 2020 Aug 07; 19(8):3230-3237. PubMed ID: 32539411
    [Abstract] [Full Text] [Related]

  • 12. MHCquant: Automated and Reproducible Data Analysis for Immunopeptidomics.
    Bichmann L, Nelde A, Ghosh M, Heumos L, Mohr C, Peltzer A, Kuchenbecker L, Sachsenberg T, Walz JS, Stevanović S, Rammensee HG, Kohlbacher O.
    J Proteome Res; 2019 Nov 01; 18(11):3876-3884. PubMed ID: 31589052
    [Abstract] [Full Text] [Related]

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  • 15. Acquisition and Analysis of DIA-Based Proteomic Data: A Comprehensive Survey in 2023.
    Lou R, Shui W.
    Mol Cell Proteomics; 2024 Feb 01; 23(2):100712. PubMed ID: 38182042
    [Abstract] [Full Text] [Related]

  • 16. Automated Workflow for Peptide-Level Quantitation from DIA/SWATH-MS Data.
    Gupta S, Röst H.
    Methods Mol Biol; 2021 Feb 01; 2228():453-468. PubMed ID: 33950509
    [Abstract] [Full Text] [Related]

  • 17. MSLibrarian: Optimized Predicted Spectral Libraries for Data-Independent Acquisition Proteomics.
    Isaksson M, Karlsson C, Laurell T, Kirkeby A, Heusel M.
    J Proteome Res; 2022 Feb 04; 21(2):535-546. PubMed ID: 35042333
    [Abstract] [Full Text] [Related]

  • 18. DPHL: A DIA Pan-human Protein Mass Spectrometry Library for Robust Biomarker Discovery.
    Zhu T, Zhu Y, Xuan Y, Gao H, Cai X, Piersma SR, Pham TV, Schelfhorst T, Haas RRGD, Bijnsdorp IV, Sun R, Yue L, Ruan G, Zhang Q, Hu M, Zhou Y, Van Houdt WJ, Le Large TYS, Cloos J, Wojtuszkiewicz A, Koppers-Lalic D, Böttger F, Scheepbouwer C, Brakenhoff RH, van Leenders GJLH, Ijzermans JNM, Martens JWM, Steenbergen RDM, Grieken NC, Selvarajan S, Mantoo S, Lee SS, Yeow SJY, Alkaff SMF, Xiang N, Sun Y, Yi X, Dai S, Liu W, Lu T, Wu Z, Liang X, Wang M, Shao Y, Zheng X, Xu K, Yang Q, Meng Y, Lu C, Zhu J, Zheng J, Wang B, Lou S, Dai Y, Xu C, Yu C, Ying H, Lim TK, Wu J, Gao X, Luan Z, Teng X, Wu P, Huang S, Tao Z, Iyer NG, Zhou S, Shao W, Lam H, Ma D, Ji J, Kon OL, Zheng S, Aebersold R, Jimenez CR, Guo T.
    Genomics Proteomics Bioinformatics; 2020 Apr 04; 18(2):104-119. PubMed ID: 32795611
    [Abstract] [Full Text] [Related]

  • 19. PIONEER: Pipeline for Generating High-Quality Spectral Libraries for DIA-MS Data.
    Manda SS, Noor Z, Hains PG, Zhong Q.
    Curr Protoc; 2021 Mar 04; 1(3):e69. PubMed ID: 33656278
    [Abstract] [Full Text] [Related]

  • 20. A Data Analysis Protocol for Quantitative Data-Independent Acquisition Proteomics.
    Pietilä S, Suomi T, Aakko J, Elo LL.
    Methods Mol Biol; 2019 Mar 04; 1871():455-465. PubMed ID: 30276755
    [Abstract] [Full Text] [Related]

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