All Faculty and Research Staff Publications

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Chen ZL, Song JP, Chen L, Zhu CQ, Cai HF, Sun MM, Stern A, Mozdziak P, Ge Y, Means WJ, et al. Characterization of TTN Novex Splicing Variants across Species and the Role of RBM20 in Novex-Specific Exon Splicing. Genes. 2018 ;9.
Lam MPY, Ge Y. Harnessing the Power of Proteomics to Assess Drug Safety and Guide Clinical Trials. Circulation. 2018 ;137:1011-1014.
Aebersold R, Agar JN, Amster IJ, Baker MS, Bertozzi CR, Boja ES, Costello CE, Cravatt BF, Fenselau C, Garcia BA, et al. How many human proteoforms are there?. Nature Chemical Biology. 2018 ;14:206-214.
Wei LM, Gregorich ZR, Lin ZQ, Cai WX, Jin YT, McKiernan SH, McIlwain S, Aiken JM, Moss RL, Diffee GM, et al. Novel Sarcopenia-related Alterations in Sarcomeric Protein Post-translational Modifications (PTMs) in Skeletal Muscles Identified by Top-down Proteomics. Molecular & Cellular Proteomics. 2018 ;17:148-159.
Leduc RD, Schwammle V, Shortreed MR, Cesnik AJ, Solntsev SK, Shaw JB, Martin MJ, Vizcaino JA, Alpi E, Danis P, et al. ProForma: A Standard Proteoform Notation. Journal of Proteome Research. 2018 ;17:1321-1325.
Chen BF, Brown KA, Lin ZQ, Ge Y. Top-Down Proteomics: Ready for Prime Time?. Analytical Chemistry. 2018 ;90:110-127.
Seok SH, Ma ZX, Feltenberger JB, Chen HB, Chen H, Scarlett C, Lin ZQ, Satyshur KA, Cortopassi M, Jefcoate CR, et al. Trace derivatives of kynurenine potently activate the aryl hydrocarbon receptor (AHR). Journal of Biological Chemistry. 2018 ;293:1994-2005.
Jin YT, Wei LM, Cai WX, Lin ZQ, Wu ZJ, Peng Y, Kohmoto T, Moss RL, Ge Y. Complete Characterization of Cardiac Myosin Heavy Chain (223 kDa) Enabled by Size-Exclusion Chromatography and Middle-Down Mass Spectrometry. Analytical Chemistry. 2017 ;89:4922-4930.
Chen BF, Hwang L, Ochowicz W, Lin ZQ, Guardado-Alvarez TM, Cai WX, Xiu LC, Dani K, Colah C, Jin S, et al. Coupling functionalized cobalt ferrite nanoparticle enrichment with online LC/MS/MS for top-down phosphoproteomics. Chemical Science. 2017 ;8:4306-4311.
Gregorich ZR, Cai WX, Lin ZQ, Chen AJ, Peng Y, Kohmoto T, Ge Y. Distinct sequences and post-translational modifications in cardiac atrial and ventricular myosin light chains revealed by top-down mass spectrometry. Journal of Molecular and Cellular Cardiology. 2017 ;107:13-21.
Hu CW, Worth M, Fan DC, Li BB, Li H, Lu L, Zhong XF, Lin ZQ, Wei LM, Ge Y, et al. Electrophilic probes for deciphering substrate recognition by O-GlcNAc transferase. Nature Chemical Biology. 2017 ;13:1267-+.
Chen BF, Guo X, Tucholski T, Lin ZQ, McIlwain S, Ge Y. The Impact of Phosphorylation on Electron Capture Dissociation of Proteins: A Top-Down Perspective. Journal of the American Society for Mass Spectrometry. 2017 ;28:1805-1814.
Yang LB, Gregorich ZR, Cai WX, Zhang P, Young B, Gu YW, Zhang JY, Ge Y. Quantitative Proteomics and Immunohistochemistry Reveal Insights into Cellular and Molecular Processes in the Infarct Border Zone One Month after Myocardial Infarction. Journal of Proteome Research. 2017 ;16:2101-2112.
Cai WX, Tucholski T, Chen BF, Alpert AJ, McIlwain S, Kohmoto T, Jin S, Ge Y. Top-Down Proteomics of Large Proteins up to 223 kDa Enabled by Serial Size Exclusion Chromatography Strategy. Analytical Chemistry. 2017 ;89:5467-5475.
Crowe SO, Rana A, Deol KK, Ge Y, Strieter ER. Ubiquitin Chain Enrichment Middle-Down Mass Spectrometry Enables Characterization of Branched Ubiquitin Chains in CellulO. Analytical Chemistry. 2017 ;89:4428-4434.
Rana A, Ge Y, Strieter ER. Ubiquitin Chain Enrichment Middle-Down Mass Spectrometry (UbiChEM-MS) Reveals Cell-Cycle Dependent Formation of Lys11/Lys48 Branched Ubiquitin Chains. Journal of Proteome Research. 2017 ;16:3363-3369.
Gregorich ZR, Peng Y, Lane NM, Wolff JJ, Wang SJ, Guo W, Guner H, Doop J, Hacker TA, Ge Y. Comprehensive assessment of chamber-specific and transmural heterogeneity in myofilament protein phosphorylation by top-down mass spectrometry. Journal of Molecular and Cellular Cardiology. 2015 ;87:102-112.
Chen YC, Sumandea MP, Larsson L, Moss RL, Ge Y. Dissecting human skeletal muscle troponin proteoforms by top-down mass spectrometry. Journal of Muscle Research and Cell Motility. 2015 ;36:169-181.
Chen YC, Ayaz-Guner S, Peng Y, Lane NM, Locher MR, Kohmoto T, Larsson L, Moss RL, Ge Y. Effective Top-Down LC/MS plus Method for Assessing Actin Isoforms as a Potential Cardiac Disease Marker. Analytical Chemistry. 2015 ;87:8399-8406.
Chang YH, Gregorich ZR, Chen AJ, Hwang LY, Guner H, Yu DY, Zhang JY, Ge Y. New Mass-Spectrometry-Compatible Degradable Surfactant for Tissue Proteomics. Journal of Proteome Research. 2015 ;14:1587-1599.
Chang YH, Ye L, Cai WX, Lee Y, Guner H, Lee Y, Kamp TJ, Zhang JY, Ge Y. Quantitative proteomics reveals differential regulation of protein expression in recipient myocardium after trilineage cardiovascular cell transplantation. Proteomics. 2015 ;15:2560-2567.
Hwang L, Ayaz-Guner S, Gregorich ZR, Cai WX, Valeja SG, Jin S, Ge Y. Specific Enrichment of Phosphoproteins Using Functionalized Multivalent Nanoparticles. Journal of the American Chemical Society. 2015 ;137:2432-2435.
Valeja SG, Xiu LC, Gregorich ZR, Guner H, Jin S, Ge Y. Three Dimensional Liquid Chromatography Coupling Ion Exchange Chromatography/Hydrophobic Interaction Chromatography/Reverse Phase Chromatography for Effective Protein Separation in Top-Down Proteomics. Analytical Chemistry. 2015 ;87:5363-5371.
Chen S, Zhu P, Guo H-M, Solis RSancho, Wang Y, Ma Y, Wang J, Gao J, Chen J-M, Ge Y, et al. Alpha1 catalytic subunit of AMPK modulates contractile function of cardiomyocytes through phosphorylation of troponin I. Life Sciences. 2014 ;98:75-82.
Ye L, Chang YH, Xiong Q, Zhang PY, Zhang LY, Somasundaram P, Lepley M, Swingen C, Su LP, Wendel JS, et al. Cardiac Repair in a Porcine Model of Acute Myocardial Infarction with Human Induced Pluripotent Stem Cell-Derived Cardiovascular Cells. Cell Stem Cell. 2014 ;15:750-761.
Xiu LC, Valeja SG, Alpert AJ, Jin S, Ge Y. Effective Protein Separation by Coupling Hydrophobic Interaction and Reverse Phase Chromatography for Top-down Proteomics. Analytical Chemistry. 2014 ;86:7899-7906.
Guner H, Close PL, Cai WX, Zhang H, Peng Y, Gregorich ZR, Ge Y. MASH Suite: A User-Friendly and Versatile Software Interface for High-Resolution Mass Spectrometry Data Interpretation and Visualization. Journal of the American Society for Mass Spectrometry. 2014 ;25:464-470.
Valkevich EM, Sanchez NA, Ge Y, Strieter ER. Middle-Down Mass Spectrometry Enables Characterization of Branched Ubiquitin Chains. Biochemistry. 2014 ;53:4979-4989.
Witayavanitkul N, Mou YAit, Kuster DWD, Khairallah RJ, Sarkey J, Govindan S, Chen X, Ge Y, Rajan S, Wieczorek DF, et al. Myocardial Infarction-induced N-terminal Fragment of Cardiac Myosin-binding Protein C ( cMyBP-C) Impairs Myofilament Function in Human Myocardium. Journal of Biological Chemistry. 2014 ;289:8818-8827.
Gregorich ZR, Chang YH, Ge Y. Proteomics in heart failure: top-down or bottom-up?. Pflugers Arch. Eur. J. Physiol. 2014 ;466:1199-1209.
Peng Y, Ayaz-Guner S, Yu DY, Ge Y. Top-down mass spectrometry of cardiac myofilament proteins in health and disease. Proteomics Clinical Applications. 2014 ;8:554-568.
Gregorich ZR, Ge Y. Top-down proteomics in health and disease: Challenges and opportunities. Proteomics. 2014 ;14:1195-1210.
Peng Y, Gregorich ZR, Valeja SG, Zhang H, Cai WX, Chen YC, Guner H, Chen AJ, Schwahn DJ, Hacker TA, et al. Top-down Proteomics Reveals Concerted Reductions in Myofilament and Z-disc Protein Phosphorylation after Acute Myocardial Infarction. Molecular & Cellular Proteomics. 2014 ;13:2752-2764.
Oliveira SM, Zhang YH, Solis RS, Isackson H, Bellahcene M, Yavari A, Pinter K, Davies JK, Ge Y, Ashrafian H, et al. AMP-Activated Protein Kinase Phosphorylates Cardiac Troponin I and Alters Contractility of Murine Ventricular Myocytes. Circulation Research. 2012 ;110:1192-1201.
Dong XT, Sumandea CA, Chen YC, Garcia-Cazarin ML, Zhang J, Balke CW, Sumandea MP, Ge Y. Augmented Phosphorylation of Cardiac Troponin I in Hypertensive Heart Failure. Journal of Biological Chemistry. 2012 ;287:848-857.
Yang C, Park AC, Davis NA, Russell JD, Kim B, Brand DD, Lawrence MJ, Ge Y, Westphall MS, Coon JJ, et al. Comprehensive Mass Spectrometric Mapping of the Hydroxylated Amino Acid residues of the α1(V) Collagen Chain. Journal of Biological Chemistry. 2012 ;287:40598-40610.
Valkevich EM, Guenette RG, Sanchez NA, Chen YC, Ge Y, Strieter ER. Forging Isopeptide Bonds Using Thiol-Ene Chemistry: Site-Specific Coupling of Ubiquitin Molecules for Studying the Activity of Isopeptidases. Journal of the American Chemical Society. 2012 ;134:6916-6919.
Wang YC, Pinto JR, Solis RS, Dweck D, Liang JS, Diaz-Perez Z, Ge Y, Walker JW, Potter JD. Generation and Functional Characterization of Knock-in Mice Harboring the Cardiac Troponin I-R21C Mutation Associated with Hypertrophic Cardiomyopathy. Journal of Biological Chemistry. 2012 ;287:2156-2167.
Jia CX, Hui LM, Cao WF, Lietz CB, Jiang XY, Chen RB, Catherman AD, Thomas PM, Ge Y, Kelleher NL, et al. High-definition De Novo Sequencing of Crustacean Hyperglycemic Hormone (CHH)-family Neuropeptides. Molecular & Cellular Proteomics. 2012 ;11:1951-1964.