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Multiplexed activity-based protein profiling of the human pathogen Aspergillus fumigatus reveals large functional changes upon exposure to human serum.
Wiedner SD, Burnum KE, Pederson LM, Anderson LN, Fortuin S, Chauvigné-Hines LM, Shukla AK, Ansong C, Panisko EA, Smith RD, Wright AT. Wiedner SD, et al. Among authors: shukla ak. J Biol Chem. 2012 Sep 28;287(40):33447-59. doi: 10.1074/jbc.M112.394106. Epub 2012 Aug 3. J Biol Chem. 2012. PMID: 22865858 Free PMC article.
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: shukla ak. 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.
Quantitative site-specific reactivity profiling of S-nitrosylation in mouse skeletal muscle using cysteinyl peptide enrichment coupled with mass spectrometry.
Su D, Shukla AK, Chen B, Kim JS, Nakayasu E, Qu Y, Aryal U, Weitz K, Clauss TR, Monroe ME, Camp DG 2nd, Bigelow DJ, Smith RD, Kulkarni RN, Qian WJ. Su D, et al. Among authors: shukla ak. Free Radic Biol Med. 2013 Apr;57:68-78. doi: 10.1016/j.freeradbiomed.2012.12.010. Epub 2012 Dec 28. Free Radic Biol Med. 2013. PMID: 23277143 Free PMC article.
A network integration approach to predict conserved regulators related to pathogenicity of influenza and SARS-CoV respiratory viruses.
Mitchell HD, Eisfeld AJ, Sims AC, McDermott JE, Matzke MM, Webb-Robertson BJ, Tilton SC, Tchitchek N, Josset L, Li C, Ellis AL, Chang JH, Heegel RA, Luna ML, Schepmoes AA, Shukla AK, Metz TO, Neumann G, Benecke AG, Smith RD, Baric RS, Kawaoka Y, Katze MG, Waters KM. Mitchell HD, et al. Among authors: shukla ak. PLoS One. 2013 Jul 25;8(7):e69374. doi: 10.1371/journal.pone.0069374. Print 2013. PLoS One. 2013. PMID: 23935999 Free PMC article.
Pathogenic influenza viruses and coronaviruses utilize similar and contrasting approaches to control interferon-stimulated gene responses.
Menachery VD, Eisfeld AJ, Schäfer A, Josset L, Sims AC, Proll S, Fan S, Li C, Neumann G, Tilton SC, Chang J, Gralinski LE, Long C, Green R, Williams CM, Weiss J, Matzke MM, Webb-Robertson BJ, Schepmoes AA, Shukla AK, Metz TO, Smith RD, Waters KM, Katze MG, Kawaoka Y, Baric RS. Menachery VD, et al. Among authors: shukla ak. mBio. 2014 May 20;5(3):e01174-14. doi: 10.1128/mBio.01174-14. mBio. 2014. PMID: 24846384 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: shukla ak. 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.
A method to determine lysine acetylation stoichiometries.
Nakayasu ES, Wu S, Sydor MA, Shukla AK, Weitz KK, Moore RJ, Hixson KK, Kim JS, Petyuk VA, Monroe ME, Pasa-Tolic L, Qian WJ, Smith RD, Adkins JN, Ansong C. Nakayasu ES, et al. Among authors: shukla ak. Int J Proteomics. 2014;2014:730725. doi: 10.1155/2014/730725. Epub 2014 Jul 20. Int J Proteomics. 2014. PMID: 25143833 Free PMC article.
581 results