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A comparative analysis of computational approaches to relative protein quantification using peptide peak intensities in label-free LC-MS proteomics experiments.
Matzke MM, Brown JN, Gritsenko MA, Metz TO, Pounds JG, Rodland KD, Shukla AK, Smith RD, Waters KM, McDermott JE, Webb-Robertson BJ. Matzke MM, et al. Among authors: rodland kd. Proteomics. 2013 Feb;13(3-4):493-503. doi: 10.1002/pmic.201200269. Epub 2012 Nov 8. Proteomics. 2013. PMID: 23019139 Free PMC article. Review.
Proteogenomic characterization of human colon and rectal cancer.
Zhang B, Wang J, Wang X, Zhu J, Liu Q, Shi Z, Chambers MC, Zimmerman LJ, Shaddox KF, Kim S, Davies SR, Wang S, Wang P, Kinsinger CR, Rivers RC, Rodriguez H, Townsend RR, Ellis MJ, Carr SA, Tabb DL, Coffey RJ, Slebos RJ, Liebler DC; NCI CPTAC. Zhang B, et al. Nature. 2014 Sep 18;513(7518):382-7. doi: 10.1038/nature13438. Epub 2014 Jul 20. Nature. 2014. PMID: 25043054 Free PMC article.
Bayesian Proteoform Modeling Improves Protein Quantification of Global Proteomic Measurements.
Webb-Robertson BJ, Matzke MM, Datta S, Payne SH, Kang J, Bramer LM, Nicora CD, Shukla AK, Metz TO, Rodland KD, Smith RD, Tardiff MF, McDermott JE, Pounds JG, Waters KM. Webb-Robertson BJ, et al. Among authors: rodland kd. Mol Cell Proteomics. 2014 Aug 16:mcp.O113.030932. doi: 10.1074/mcp.O113.030932. Online ahead of print. Mol Cell Proteomics. 2014. PMID: 25129695 Free article.
Bayesian proteoform modeling improves protein quantification of global proteomic measurements.
Webb-Robertson BJ, Matzke MM, Datta S, Payne SH, Kang J, Bramer LM, Nicora CD, Shukla AK, Metz TO, Rodland KD, Smith RD, Tardiff MF, McDermott JE, Pounds JG, Waters KM. Webb-Robertson BJ, et al. Among authors: rodland kd. Mol Cell Proteomics. 2014 Dec;13(12):3639-46. doi: 10.1074/mcp.M113.030932. Mol Cell Proteomics. 2014. PMID: 25433089 Free PMC article.
Review, evaluation, and discussion of the challenges of missing value imputation for mass spectrometry-based label-free global proteomics.
Webb-Robertson BJ, Wiberg HK, Matzke MM, Brown JN, Wang J, McDermott JE, Smith RD, Rodland KD, Metz TO, Pounds JG, Waters KM. Webb-Robertson BJ, et al. Among authors: rodland kd. J Proteome Res. 2015 May 1;14(5):1993-2001. doi: 10.1021/pr501138h. Epub 2015 Apr 22. J Proteome Res. 2015. PMID: 25855118 Free PMC article. Review.
Reproducibility of Differential Proteomic Technologies in CPTAC Fractionated Xenografts.
Tabb DL, Wang X, Carr SA, Clauser KR, Mertins P, Chambers MC, Holman JD, Wang J, Zhang B, Zimmerman LJ, Chen X, Gunawardena HP, Davies SR, Ellis MJ, Li S, Townsend RR, Boja ES, Ketchum KA, Kinsinger CR, Mesri M, Rodriguez H, Liu T, Kim S, McDermott JE, Payne SH, Petyuk VA, Rodland KD, Smith RD, Yang F, Chan DW, Zhang B, Zhang H, Zhang Z, Zhou JY, Liebler DC. Tabb DL, et al. Among authors: rodland kd. J Proteome Res. 2016 Mar 4;15(3):691-706. doi: 10.1021/acs.jproteome.5b00859. Epub 2015 Dec 22. J Proteome Res. 2016. PMID: 26653538 Free PMC article.
169 results