Heng Zhu

Summary

Affiliation: Johns Hopkins University
Country: USA

Publications

  1. pmc Phosphorylation of the chromatin binding domain of KSHV LANA
    Crystal Woodard
    High Throughput Biology Center, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    PLoS Pathog 8:e1002972. 2012
  2. ncbi request reprint Lectin microarrays: a powerful tool for glycan-based biomarker discovery
    Shu Min Zhou
    Shanghai Center for Systems Biomedicine, Key Laboratory of Systems Biomedicine Ministry of Education, Shanghai Jiao Tong University, Shanghai, China
    Comb Chem High Throughput Screen 14:711-9. 2011
  3. pmc Global analysis of phosphorylation networks in humans
    Jianfei Hu
    Department of Ophthalmology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Biochim Biophys Acta 1844:224-31. 2014
  4. pmc Conserved herpesvirus kinases target the DNA damage response pathway and TIP60 histone acetyltransferase to promote virus replication
    Renfeng Li
    Department of Oncology, Johns Hopkins School of Medicine, Baltimore, MD 21231, USA
    Cell Host Microbe 10:390-400. 2011
  5. pmc A protein array screen for Kaposi's sarcoma-associated herpesvirus LANA interactors links LANA to TIP60, PP2A activity, and telomere shortening
    Meir Shamay
    Viral Oncology Program, Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    J Virol 86:5179-91. 2012
  6. pmc PhosphoNetworks: a database for human phosphorylation networks
    Jianfei Hu
    Department of Ophthalmology, Johns Hopkins School of Medicine, Department of Pharmacology and Molecular Sciences, Center for High Throughput Biology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA, Department of Biology, North Carolina Agricultural and Technical State University, Greensboro, NC 27411, USA and The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Bioinformatics 30:141-2. 2014
  7. pmc Interactome mapping: using protein microarray technology to reconstruct diverse protein networks
    Ijeoma Uzoma
    Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Genomics Proteomics Bioinformatics 11:18-28. 2013
  8. pmc SUMO binding by the Epstein-Barr virus protein kinase BGLF4 is crucial for BGLF4 function
    Renfeng Li
    Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    J Virol 86:5412-21. 2012
  9. pmc Integrative analysis of tissue-specific methylation and alternative splicing identifies conserved transcription factor binding motifs
    Jun Wan
    Department of Ophthalmology, Wilmer Institute, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Pharmacology and Molecular Science, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Neuroscience, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Institute of Genetic Medicine, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA and Institut de la Vision, 17 rue Moreau, 75012 Paris, France
    Nucleic Acids Res 41:8503-14. 2013
  10. pmc Construction of human activity-based phosphorylation networks
    Robert H Newman
    Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Mol Syst Biol 9:655. 2013

Collaborators

Detail Information

Publications30

  1. pmc Phosphorylation of the chromatin binding domain of KSHV LANA
    Crystal Woodard
    High Throughput Biology Center, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    PLoS Pathog 8:e1002972. 2012
    ..The data indicate that RSK phosphorylation affects both LANA accumulation and function...
  2. ncbi request reprint Lectin microarrays: a powerful tool for glycan-based biomarker discovery
    Shu Min Zhou
    Shanghai Center for Systems Biomedicine, Key Laboratory of Systems Biomedicine Ministry of Education, Shanghai Jiao Tong University, Shanghai, China
    Comb Chem High Throughput Screen 14:711-9. 2011
    ..Based on the tremendous progress already achieved, it seems apparent that lectin microarrays will soon become an indispensible tool for glycosylation biomarker discovery...
  3. pmc Global analysis of phosphorylation networks in humans
    Jianfei Hu
    Department of Ophthalmology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Biochim Biophys Acta 1844:224-31. 2014
    ..This article is part of a Special Issue entitled: Computational Proteomics, Systems Biology & Clinical Implications. Guest Editor: Yudong Cai. ..
  4. pmc Conserved herpesvirus kinases target the DNA damage response pathway and TIP60 histone acetyltransferase to promote virus replication
    Renfeng Li
    Department of Oncology, Johns Hopkins School of Medicine, Baltimore, MD 21231, USA
    Cell Host Microbe 10:390-400. 2011
    ..Identification of key cellular targets of the conserved herpesvirus kinases will facilitate the development of broadly effective antiviral strategies...
  5. pmc A protein array screen for Kaposi's sarcoma-associated herpesvirus LANA interactors links LANA to TIP60, PP2A activity, and telomere shortening
    Meir Shamay
    Viral Oncology Program, Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    J Virol 86:5179-91. 2012
    ..However, LANA expression in telomerase immortalized endothelial cells resulted in telomere shortening. In KSHV-infected cells, telomere shortening may be one more mechanism by which LANA contributes to the development of malignancy...
  6. pmc PhosphoNetworks: a database for human phosphorylation networks
    Jianfei Hu
    Department of Ophthalmology, Johns Hopkins School of Medicine, Department of Pharmacology and Molecular Sciences, Center for High Throughput Biology, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA, Department of Biology, North Carolina Agricultural and Technical State University, Greensboro, NC 27411, USA and The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Bioinformatics 30:141-2. 2014
    ..In addition, the database also includes several analytical tools for dissecting phosphorylation networks. PhosphoNetworks is expected to play a prominent role in proteomics and phosphorylation-related disease research...
  7. pmc Interactome mapping: using protein microarray technology to reconstruct diverse protein networks
    Ijeoma Uzoma
    Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Genomics Proteomics Bioinformatics 11:18-28. 2013
    ..We will also discuss emerging applications and future directions of protein microarray technology in the global frontier...
  8. pmc SUMO binding by the Epstein-Barr virus protein kinase BGLF4 is crucial for BGLF4 function
    Renfeng Li
    Department of Oncology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    J Virol 86:5412-21. 2012
    ..Thus, SUMO binding by BGLF4 modulates BGLF4 function and affects the efficiency of lytic EBV replication...
  9. pmc Integrative analysis of tissue-specific methylation and alternative splicing identifies conserved transcription factor binding motifs
    Jun Wan
    Department of Ophthalmology, Wilmer Institute, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Pharmacology and Molecular Science, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Department of Neuroscience, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA, Institute of Genetic Medicine, Johns Hopkins University School of Medicine, 600 North Wolfe Street, 21287 Baltimore, MD, USA and Institut de la Vision, 17 rue Moreau, 75012 Paris, France
    Nucleic Acids Res 41:8503-14. 2013
    ..Our results suggest that DNA methylation-dependent alternative splicing is widespread and lay the foundation for further mechanistic studies of the role of DNA methylation in tissue-specific splicing regulation. ..
  10. pmc Construction of human activity-based phosphorylation networks
    Robert H Newman
    Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, MD 21205, USA
    Mol Syst Biol 9:655. 2013
    ..Overall, these studies provide global insights into kinase-mediated signaling pathways and promise to advance our understanding of cellular signaling processes in humans...
  11. doi request reprint Characterization of protein-DNA interactions using protein microarrays
    Shaohui Hu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Cold Spring Harb Protoc 2011:pdb.prot5614. 2011
    ..This approach provides simultaneous identification of PDIs for thousands of proteins, and multiple carefully designed DNA probes can be tested in parallel, which enables a rapid mapping of PDIs on a proteome-wide scale...
  12. pmc Functional protein microarray technology
    Shaohui Hu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, Baltimore, MD, USA
    Wiley Interdiscip Rev Syst Biol Med 3:255-68. 2011
    ..We strongly believe that functional protein microarrays will soon become an indispensible and invaluable tool in proteomics research and systems biology...
  13. pmc Profiling the human protein-DNA interactome reveals ERK2 as a transcriptional repressor of interferon signaling
    Shaohui Hu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Cell 139:610-22. 2009
    ..One such uDBP, ERK2, acts as a transcriptional repressor for interferon gamma-induced genes, suggesting important biological roles for such proteins...
  14. pmc Profiling the dynamics of a human phosphorylome reveals new components in HGF/c-Met signaling
    Crystal L Woodard
    Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, Maryland, United States of America
    PLoS ONE 8:e72671. 2013
    ....
  15. doi request reprint Systematic characterization of protein-DNA interactions
    Zhi Xie
    Department of Ophthalmology, Johns Hopkins University School of Medicine, Baltimore, MD, USA
    Cell Mol Life Sci 68:1657-68. 2011
    ..The results of these studies have challenged some long-standing concepts of PDI and provide valuable insights into the complex transcriptional regulatory networks...
  16. pmc Distribution, recognition and regulation of non-CpG methylation in the adult mammalian brain
    Junjie U Guo
    1 Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA 2 The Solomon H Snyder Department of Neuroscience, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA 3 Department of Neurology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA 4 5
    Nat Neurosci 17:215-22. 2014
    ....
  17. pmc Rapid identification of monospecific monoclonal antibodies using a human proteome microarray
    Jun Seop Jeong
    Department of Pharmacology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    Mol Cell Proteomics 11:O111.016253. 2012
    ..Our data indicate that the pipeline provides a robust platform for the generation of monoclonal antibodies of exceptional specificity...
  18. pmc Unbiased discovery of interactions at a control locus driving expression of the cancer-specific therapeutic and diagnostic target, mesothelin
    Yunzhao R Ren
    The Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins University, School of Medicine, Baltimore, Maryland 21231, USA
    J Proteome Res 11:5301-10. 2012
    ..Combined interactome screens yield an efficient, reproducible, sensitive, and unbiased approach to identify sequence-specific DNA-binding proteins and other participants in disease-specific DNA elements...
  19. pmc Applications of functional protein microarrays in basic and clinical research
    Heng Zhu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, Baltimore, MD, USA
    Adv Genet 79:123-55. 2012
    ..As a powerful technology platform, it would not be surprising if protein microarrays will become one of the leading technologies in proteomic and diagnostic fields in the next decade...
  20. pmc Comparison of humoral immune responses to Epstein-Barr virus and Kaposi's sarcoma-associated herpesvirus using a viral proteome microarray
    Dasheng Zheng
    Viral Oncology Program, Sidney Kimmel Cancer Center, Baltimore, Maryland, USA
    J Infect Dis 204:1683-91. 2011
    ..Both viruses are associated with malignancies that have an increased frequency in individuals who are coinfected with human immunodeficiency virus type 1 (HIV-1)...
  21. pmc Global tumor protein p53/p63 interactome: making a case for cisplatin chemoresistance
    Yiping Huang
    Department of Dermatology, Institute of Basic Biomedical Sciences, The Johns Hopkins University School of Medicine, Baltimore, MD, USA
    Cell Cycle 11:2367-79. 2012
    ..Overall, our studies provide an integrated proteomic platform in making a case for the role of the p53/p63 interactome in cisplatin chemoresistance...
  22. pmc VirD: a virion display array for profiling functional membrane proteins
    Shaohui Hu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins School of Medicine, Baltimore, Maryland 21205, USA
    Anal Chem 85:8046-54. 2013
    ..This method can be readily scaled or tailored for different modalities including a high-content, high-throughput platform for screening ligands and drugs of human membrane proteins. ..
  23. pmc Regulation of CK2 by phosphorylation and O-GlcNAcylation revealed by semisynthesis
    Mary Katherine Tarrant
    Department of Pharmacology and Molecular Sciences, The Johns Hopkins University School of Medicine, Baltimore, Maryland, USA
    Nat Chem Biol 8:262-9. 2012
    ..This study suggests how a promiscuous protein kinase can be regulated at multiple levels to achieve particular biological outputs...
  24. doi request reprint A functional protein microarray approach to characterizing posttranslational modifications on lysine residues
    Jun Seop Jeong
    Department of Pharmacology and Molecular Sciences, High Throughput Biology Center, Johns Hopkins School of Medicine, Baltimore, MD, USA
    Methods Mol Biol 723:213-23. 2011
    ..In this chapter, we will provide detailed protocols for the investigation of ubiquitylation and acetylation. These protocols are generally applicable for different organisms...
  25. pmc hPDI: a database of experimental human protein-DNA interactions
    Zhi Xie
    Department of Ophthalmology, Johns Hopkins University School of Medicine, Baltimore, MD 21231, USA
    Bioinformatics 26:287-9. 2010
    ..Users can browse, search and download a subset or the entire data via a web interface. This database is freely accessible for any academic purposes. Availability: http://bioinfo.wilmer.jhu.edu/PDI/...
  26. pmc Understanding protein phosphorylation on a systems level
    Jimmy Lin
    Department of Ophthalmology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Brief Funct Genomics 9:32-42. 2010
    ..This article gives an overview of experimental and computational techniques for identifying and analyzing protein phosphorylation on a systems level...
  27. pmc High-throughput lectin microarray-based analysis of live cell surface glycosylation
    Yu Li
    Department of Pathology, Oncology and Medicine and Institute for Cell Engineering, Johns Hopkins University, Baltimore, Maryland, USA
    Curr Protoc Protein Sci . 2011
    ..The current unit presents a lectin-based microarray approach for analyzing cell surface glycosylation in a high-throughput fashion...
  28. pmc Protein array identification of substrates of the Epstein-Barr virus protein kinase BGLF4
    Jian Zhu
    Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine, BRB 333, 733 N Broadway Ave, Baltimore, MD 21205, USA
    J Virol 83:5219-31. 2009
    ..We propose that BGLF4 contributes to effective EBV lytic cycle progression, not only through phosphorylation of EBV lytic DNA replication and virion proteins, but also by interfering with the EBNA1 replication function...
  29. pmc An integrated micro-electro-fluidic and protein arraying system for parallel analysis of cell responses to controlled microenvironments
    Zhizhong Yin
    Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland, USA
    Integr Biol (Camb) 2:416-23. 2010
    ..This study demonstrates considerable potential of combining precise cell patterning and liquid medium control with protein microarray technology for complex cell signaling studies in a high-throughput manner...
  30. pmc The long noncoding RNA Six3OS acts in trans to regulate retinal development by modulating Six3 activity
    Nicole A Rapicavoli
    Department of Neuroscience, Neurology and Ophthalmology, Center for High Throughput Biology and Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21287, USA
    Neural Dev 6:32. 2011
    ..Thousands of different long non-coding RNAs are expressed during embryonic development, but the function of these molecules remains largely unexplored...

Research Grants4