Advanced Mass Spectrometry and Proteomics Laboratory

Our Representative Publications on Methods and Applications:

Expression Profiling and Proteome Characterization

  • Label-free LC-MS/MS identification of phosphatidylglycerol-regulated proteins in Synechocystis sp. PCC6803. Proteomics. 2014 Apr;14(9):1053-7. Talamantes T, Ughy B, Domonkos I, Gombos Z, Prokai L.
  • Proteomic analysis of signaling network regulation in renal cell carcinomas with differential hypoxia-inducible factor-2α expression. PLoS One. 2013 Aug;8(8):e71654. Nagaprashantha LD, Talamantes T, Singhal J, Guo J, Vatsyayan R, Rauniyar N, Awasthi S, Singhal SS, Prokai L.
  • Rapid label-free identification of estrogen-induced differential protein expression in vivo from mouse brain and uterine tissue.  J Proteome Res. 2009 Aug;8(8):3862-71.   Prokai L, Stevens SM Jr, Rauniyar N.
  • Proteomic analysis of mouse brain microsomes: Identification and bioinformatic characterization of endoplasmic reticulum proteins in the mammalian central nervous system. J Proteome Res. 2008 March;7(3):1046-54.   Stevens SM Jr, Duncan RS, Koulen P, Prokai L.
  • Effect of chronic morphine exposure on the synaptic plasma-membrane subproteome of rats: a quantitative protein profiling study based on isotope-coded affinity tags and liquid chromatography/mass spectrometry. J Mass Spectrom. 2005 Feb;40(2):169-75.   Prokai L, Zharikova AD, Stevens SM Jr.
  • Proteomic analysis of the synaptic plasma membrane fraction isolated from rat forebrain. Brain Res Mol Brain Res. 2003 Oct 7;117(2):116-28.  Stevens SM Jr, Zharikova AD, Prokai L.

Posttranslational Modifications

  • Selective chemoprecipitation to enrich nitropeptides from complex proteomes for mass spectrometric analysis.  Nat Protoc. 2014 Apr;9(4):882-95.   Prokai L, Guo J, Prokai-Tatrai K.
  • Conversion of 3-nitrotyrosine to 3-aminotyrosine residues facilitates mapping of tyrosine nitration in proteins by electrospray ionization–tandem mass spectrometry using electron capture dissociation.  J Mass Spectrom. 2012 Dec;47(12):1601-11.   Guo J, Prokai L.
  • To tag or not to tag: A comparative evaluation of immunoaffinity-labeling and tandem mass spectrometry for the identification and localization of posttranslational protein carbonylation by 4-hydroxy-2-nonenal, an end-product of lipid peroxidation.  J Proteomics. 2011 Oct;74(11):2360-9.   Guo J, Prokai L.
  • Selective chemoprecipitation and subsequent release of tagged species for the analysis of nitropeptides by liquid chromatography–tandem mass spectrometry.  Mol Cell Proteomics. 2011 Aug;10(8):10.1074/mcp.M110.002923.   Prokai-Tatrai K, Guo J, Prokai L.
  • Identification of carbonylation sites in apomyoglobin after exposure to 4-hydroxy-2-nonenal by solid-phase enrichment and liquid chromatography-electrospray ionization tandem mass spectrometry. J Mass Spectrom. 2010 April;45(4):398-410.  Rauniyar N, Prokai-Tatrai K, Prokai L.
  • Detection and identification of 4-hydroxy-2-nonenal Schiff-base adducts along with products of Michael addition using data-dependent neutral loss-driven MS3 acquisition: method evaluation through an in vitro study on cytochrome c oxidase modifications. Proteomics. 2009 Nov;9(22):5188-93.  Rauniyar N, Prokai L.
  • Characterization of 4-hydroxy-2-nonenal-modified peptides by liquid chromatography-tandem mass spectrometry using data-dependent acquisition: neutral loss-driven MS3  versus neutral loss-driven electron capture dissociation. Anal Chem. 2009 Jan;81(2):782-9.  Rauniyar N, Stevens SM, Prokai-Tatrai K, Prokai L.
  • Factors that contribute to the misidentification of tyrosine nitration by shotgun proteomics. Mol Cell Proteomics. 2008 Dec;7(12):2442-51.  Stevens SM, Prokai-Tatrai K, Prokai L.
  • Rapid characterization of covalent modifications to rat brain mitochondrial proteins after ex vivo exposure to 4-hydroxy-2-nonenal by liquid chromatography-tandem mass spectrometry using data-dependent and neutral loss-driven MS3 acquisition.  J Mass Spectrom. 2007 Dec;42(12):1599-605.  Stevens SM Jr, Rauniyar N, Prokai L.

De Novo Protein Sequencing

  • De novo sequencing of a 21-kDa cytochrome c4 from Thiocapsa roseopersicina by nanoelectrospray ionization ion-trap and Fourier-transform ion-cyclotron resonance mass spectrometry. J Mass Spectrom. 2007 Dec;42(12):1569-82. Branca RM, Bodó G, Bagyinka C, Prokai L.

Pharmacokinetics and Drug Distribution

  • 17β-Estradiol eye drops protect the retinal ganglion cell layer and preserve visual function in an in vivo model of glaucoma. Mol Pharmaceutics. 2013 Aug;10(8):6025-33. Prokai-Tatrai K, Hua X, Nguyen V, Szarka S, Prokai L, Koulen P.
  • Centrally acting and metabolically stable thyrotropin-releasing hormone analogues by replacement of histidine with substituted pyridinium. J Med Chem. 2004 Nov;47(24):6025-33. Prokai L, Prokai-Tatrai K, Zharikova AD, Nguyen V, Perjesi P, Stevens SM Jr.
  • Integration of mass  spectrometry into early-phase discovery and development of central nervous system agents. J Mass Spectrom. 2001 Nov;36(11):1211-9.   Prokai L, Zharikova AD, Janáky T, Li X, Braddy AC, Perjesi P, Matveeva L, Powell DH, Prokai-Tatrai K.
  • Exploratory pharmacokinetics and brain distribution study of a neuropeptide FF antagonist by liquid chromatography/atmospheric pressure ionization tandem mass spectrometry. Rapid Commun Mass Spectrom. 2000;14(24):2412-8.  Prokai L, Zharikova AD, Janáky T, Prokai-Tatrai K.