BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

156 related articles for article (PubMed ID: 33683901)

  • 1. Binary Classifier for Computing Posterior Error Probabilities in MetaMorpheus.
    Shortreed MR; Millikin RJ; Liu L; Rolfs Z; Miller RM; Schaffer LV; Frey BL; Smith LM
    J Proteome Res; 2021 Apr; 20(4):1997-2004. PubMed ID: 33683901
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Enhanced Proteomic Data Analysis with MetaMorpheus.
    Miller RM; Millikin RJ; Rolfs Z; Shortreed MR; Smith LM
    Methods Mol Biol; 2023; 2426():35-66. PubMed ID: 36308684
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Improved Protein Inference from Multiple Protease Bottom-Up Mass Spectrometry Data.
    Miller RM; Millikin RJ; Hoffmann CV; Solntsev SK; Sheynkman GM; Shortreed MR; Smith LM
    J Proteome Res; 2019 Sep; 18(9):3429-3438. PubMed ID: 31378069
    [TBL] [Abstract][Full Text] [Related]  

  • 4. A Hybrid Spectral Library and Protein Sequence Database Search Strategy for Bottom-Up and Top-Down Proteomic Data Analysis.
    Dai Y; Millikin RJ; Rolfs Z; Shortreed MR; Smith LM
    J Proteome Res; 2022 Nov; 21(11):2609-2618. PubMed ID: 36206157
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Spritz: A Proteogenomic Database Engine.
    Cesnik AJ; Miller RM; Ibrahim K; Lu L; Millikin RJ; Shortreed MR; Frey BL; Smith LM
    J Proteome Res; 2021 Apr; 20(4):1826-1834. PubMed ID: 32967423
    [TBL] [Abstract][Full Text] [Related]  

  • 6. MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines.
    Kwon T; Choi H; Vogel C; Nesvizhskii AI; Marcotte EM
    J Proteome Res; 2011 Jul; 10(7):2949-58. PubMed ID: 21488652
    [TBL] [Abstract][Full Text] [Related]  

  • 7. A novel algorithm for validating peptide identification from a shotgun proteomics search engine.
    Jian L; Niu X; Xia Z; Samir P; Sumanasekera C; Mu Z; Jennings JL; Hoek KL; Allos T; Howard LM; Edwards KM; Weil PA; Link AJ
    J Proteome Res; 2013 Mar; 12(3):1108-19. PubMed ID: 23402659
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Improving Proteoform Identifications in Complex Systems Through Integration of Bottom-Up and Top-Down Data.
    Schaffer LV; Millikin RJ; Shortreed MR; Scalf M; Smith LM
    J Proteome Res; 2020 Aug; 19(8):3510-3517. PubMed ID: 32584579
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Calculation of False Discovery Rate for Peptide and Protein Identification.
    Prieto G; Vázquez J
    Methods Mol Biol; 2020; 2051():145-159. PubMed ID: 31552628
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Fast and Accurate Protein False Discovery Rates on Large-Scale Proteomics Data Sets with Percolator 3.0.
    The M; MacCoss MJ; Noble WS; Käll L
    J Am Soc Mass Spectrom; 2016 Nov; 27(11):1719-1727. PubMed ID: 27572102
    [TBL] [Abstract][Full Text] [Related]  

  • 11. A statistical method for assessing peptide identification confidence in accurate mass and time tag proteomics.
    Stanley JR; Adkins JN; Slysz GW; Monroe ME; Purvine SO; Karpievitch YV; Anderson GA; Smith RD; Dabney AR
    Anal Chem; 2011 Aug; 83(16):6135-40. PubMed ID: 21692516
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Spectral probabilities of top-down tandem mass spectra.
    Liu X; Segar MW; Li SC; Kim S
    BMC Genomics; 2014; 15 Suppl 1(Suppl 1):S9. PubMed ID: 24564718
    [TBL] [Abstract][Full Text] [Related]  

  • 13. A decoy-free approach to the identification of peptides.
    Gonnelli G; Stock M; Verwaeren J; Maddelein D; De Baets B; Martens L; Degroeve S
    J Proteome Res; 2015 Apr; 14(4):1792-8. PubMed ID: 25714903
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Harvest: an open-source tool for the validation and improvement of peptide identification metrics and fragmentation exploration.
    McHugh LC; Arthur JW
    BMC Bioinformatics; 2010 Sep; 11():448. PubMed ID: 20815925
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Automated Assignment of Proteoform Classification Levels.
    Rolfs Z; Smith LM
    J Proteome Res; 2021 Aug; 20(8):4101-4105. PubMed ID: 34181432
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Micro-Data-Independent Acquisition for High-Throughput Proteomics and Sensitive Peptide Mass Spectrum Identification.
    Heaven MR; Cobbs AL; Nei YW; Gutierrez DB; Herren AW; Gunawardena HP; Caprioli RM; Norris JL
    Anal Chem; 2018 Aug; 90(15):8905-8911. PubMed ID: 29984981
    [TBL] [Abstract][Full Text] [Related]  

  • 17. [A novel approach for peptide identification by tandem mass spectrometry].
    Sheng QH; Tang HX; Xie T; Wang LS; Ding DF
    Sheng Wu Hua Xue Yu Sheng Wu Wu Li Xue Bao (Shanghai); 2003 Aug; 35(8):734-40. PubMed ID: 12897969
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Spectral averaging with outlier rejection algorithms to increase identifications in top-down proteomics.
    Carr AV; Bollis NE; Pavek JG; Shortreed MR; Smith LM
    Proteomics; 2024 Apr; 24(8):e2300234. PubMed ID: 38487981
    [TBL] [Abstract][Full Text] [Related]  

  • 19. The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results.
    Braisted JC; Kuntumalla S; Vogel C; Marcotte EM; Rodrigues AR; Wang R; Huang ST; Ferlanti ES; Saeed AI; Fleischmann RD; Peterson SN; Pieper R
    BMC Bioinformatics; 2008 Dec; 9():529. PubMed ID: 19068132
    [TBL] [Abstract][Full Text] [Related]  

  • 20. A two-step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies.
    Jagtap P; Goslinga J; Kooren JA; McGowan T; Wroblewski MS; Seymour SL; Griffin TJ
    Proteomics; 2013 Apr; 13(8):1352-7. PubMed ID: 23412978
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 8.