Yingming Zhao

Summary

Affiliation: University of Chicago
Country: USA

Publications

  1. pmc Bioinformatic analysis and post-translational modification crosstalk prediction of lysine acetylation
    Zhike Lu
    Ben May Department for Cancer Research, University of Chicago, Chicago, Illinois, United States of America
    PLoS ONE 6:e28228. 2011
  2. pmc Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques
    Yingming Zhao
    The Ben May Department for Cancer Research, The University of Chicago, Chicago, IL, USA
    Proteomics 9:4632-41. 2009
  3. pmc Site-specific ubiquitination is required for relieving the transcription factor Miz1-mediated suppression on TNF-α-induced JNK activation and inflammation
    Jing Liu
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 109:191-6. 2012
  4. ncbi request reprint Lysine 2-hydroxyisobutyrylation is a widely distributed active histone mark
    Lunzhi Dai
    Ben May Department of Cancer Research, The University of Chicago, Chicago, Illinois, USA
    Nat Chem Biol 10:365-70. 2014
  5. pmc Quantitative acetylome analysis reveals the roles of SIRT1 in regulating diverse substrates and cellular pathways
    Yue Chen
    Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
    Mol Cell Proteomics 11:1048-62. 2012
  6. pmc Lysine succinylation and lysine malonylation in histones
    Zhongyu Xie
    Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
    Mol Cell Proteomics 11:100-7. 2012
  7. pmc The first identification of lysine malonylation substrates and its regulatory enzyme
    Chao Peng
    Ben May Department for Cancer Research, The University of Chicago, Chicago, IL 60637, USA
    Mol Cell Proteomics 10:M111.012658. 2011
  8. pmc Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification
    Minjia Tan
    Ben May Department of Cancer Research, The University of Chicago, Chicago, IL 60637, USA
    Cell 146:1016-28. 2011
  9. doi request reprint SILAC-based quantification of Sirt1-responsive lysine acetylome
    Yue Chen
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL, USA
    Methods Mol Biol 1077:105-20. 2013
  10. pmc Identification of lysine succinylation substrates and the succinylation regulatory enzyme CobB in Escherichia coli
    Gozde Colak
    Ben May Department of Cancer Research, University of Chicago, Chicago, Illinois 60637
    Mol Cell Proteomics 12:3509-20. 2013

Collaborators

Detail Information

Publications17

  1. pmc Bioinformatic analysis and post-translational modification crosstalk prediction of lysine acetylation
    Zhike Lu
    Ben May Department for Cancer Research, University of Chicago, Chicago, Illinois, United States of America
    PLoS ONE 6:e28228. 2011
    ..Our work validates earlier smaller-scale studies on the acetylome and demonstrates the importance of PTM crosstalk for regulation of cellular function...
  2. pmc Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques
    Yingming Zhao
    The Ben May Department for Cancer Research, The University of Chicago, Chicago, IL, USA
    Proteomics 9:4632-41. 2009
    ..We review some of the current strategies employed for enrichment and detection of PTMs in modification-specific proteomics...
  3. pmc Site-specific ubiquitination is required for relieving the transcription factor Miz1-mediated suppression on TNF-α-induced JNK activation and inflammation
    Jing Liu
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 109:191-6. 2012
    ....
  4. ncbi request reprint Lysine 2-hydroxyisobutyrylation is a widely distributed active histone mark
    Lunzhi Dai
    Ben May Department of Cancer Research, The University of Chicago, Chicago, Illinois, USA
    Nat Chem Biol 10:365-70. 2014
    ..The histone Khib mark is conserved and widely distributed, has high stoichiometry and induces a large structural change. These findings suggest its critical role on the regulation of chromatin functions. ..
  5. pmc Quantitative acetylome analysis reveals the roles of SIRT1 in regulating diverse substrates and cellular pathways
    Yue Chen
    Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
    Mol Cell Proteomics 11:1048-62. 2012
    ..Taken together, our results reveal the Lys acetylome in response to SIRT1, provide new insights into mechanisms of SIRT1 function, and offer biomarker candidates for the clinical evaluation of SIRT1-activator compounds...
  6. pmc Lysine succinylation and lysine malonylation in histones
    Zhongyu Xie
    Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois 60637, USA
    Mol Cell Proteomics 11:100-7. 2012
    ..cerevisiae cells, respectively. Our results therefore increase potential combinatorial diversity of histone PTMs and suggest possible new connections between histone biology and metabolism...
  7. pmc The first identification of lysine malonylation substrates and its regulatory enzyme
    Chao Peng
    Ben May Department for Cancer Research, The University of Chicago, Chicago, IL 60637, USA
    Mol Cell Proteomics 10:M111.012658. 2011
    ..Our results therefore reveal a new type of PTM pathway and identify the first enzyme that can regulate lysine malonylation and lysine succinylation status...
  8. pmc Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification
    Minjia Tan
    Ben May Department of Cancer Research, The University of Chicago, Chicago, IL 60637, USA
    Cell 146:1016-28. 2011
    ..These results therefore dramatically extend the repertoire of histone PTM sites and designate Kcr as a specific mark of active sex chromosome-linked genes in postmeiotic male germ cells...
  9. doi request reprint SILAC-based quantification of Sirt1-responsive lysine acetylome
    Yue Chen
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL, USA
    Methods Mol Biol 1077:105-20. 2013
    ..The method should be applicable to quantify changes to other post translational modifications in diverse cellular systems. ..
  10. pmc Identification of lysine succinylation substrates and the succinylation regulatory enzyme CobB in Escherichia coli
    Gozde Colak
    Ben May Department of Cancer Research, University of Chicago, Chicago, Illinois 60637
    Mol Cell Proteomics 12:3509-20. 2013
    ..In addition, it is highly likely that lysine succinylation could have unique and more profound regulatory roles in cellular metabolism relative to lysine acetylation under some physiological conditions. ..
  11. pmc Recombinant antibodies to histone post-translational modifications
    Takamitsu Hattori
    Department of Biochemistry and Molecular Biology, The University of Chicago, Chicago, Illinois, USA
    Nat Methods 10:992-5. 2013
    ..These recombinant antibodies performed well in common epigenetics applications, and enabled us to identify positive and negative correlations among histone PTMs. ..
  12. pmc Tetrandrine inhibits Wnt/β-catenin signaling and suppresses tumor growth of human colorectal cancer
    Bai Cheng He
    Department of Pharmacology and the Key Laboratory of Diagnostic Medicine designated by Chinese Ministry of Education, Chongqing Medical University, Chongqing, China
    Mol Pharmacol 79:211-9. 2011
    ..Thus, our findings strongly suggest that the anticancer effect of TET in colon cancer may be at least in part mediated by targeting β-catenin activity. Therefore, TET may be used alone or in combination as an effective anticancer agent...
  13. pmc The first global screening of protein substrates bearing protein-bound 3,4-Dihydroxyphenylalanine in Escherichia coli and human mitochondria
    Sangkyu Lee
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
    J Proteome Res 9:5705-14. 2010
    ..The substrate proteins identified in this study offer a rich source for determining their regulatory enzymes and for further characterization of the possible contributions of this modification to cellular physiology and human diseases...
  14. pmc Miz1 is a signal- and pathway-specific modulator or regulator (SMOR) that suppresses TNF-alpha-induced JNK1 activation
    Jing Liu
    Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 106:18279-84. 2009
    ..Thus, our results show that in addition to being a transcription factor Miz1 acts as a signal- and pathway-specific modulator or regulator that specifically regulates TNF-alpha-induced JNK1 activation and cell death...
  15. pmc HDAC3-dependent reversible lysine acetylation of cardiac myosin heavy chain isoforms modulates their enzymatic and motor activity
    Sadhana A Samant
    Department of Surgery, University of Chicago, Chicago, Illinois 60637, USA
    J Biol Chem 286:5567-77. 2011
    ..These studies provide the first evidence for localization of HDAC3 at myofilaments and uncover a novel mechanism modulating the motor activity of cardiac MHC isoforms...
  16. pmc Identification of lysine succinylation as a new post-translational modification
    Zhihong Zhang
    Ben May Department for Cancer Research, The University of Chicago, Chicago, Illinois, USA
    Nat Chem Biol 7:58-63. 2011
    ..Given the apparent high abundance of lysine succinylation and the significant structural changes induced by this PTM, it is expected that lysine succinylation has important cellular functions...
  17. pmc Phosphorylation of Bad at Thr-201 by JNK1 promotes glycolysis through activation of phosphofructokinase-1
    Hongbin Deng
    Ben May Department for Cancer Research, The University of Chicago, 929 East 57th Street, Chicago, IL 60637, USA
    J Biol Chem 283:20754-60. 2008
    ..Thus, our results provide a novel molecular mechanism by which JNK1 promotes glycolysis for cell survival...