Jin Wang

Your browser does not have JavaScript enable the site will not look they way it was intended, we recomend you enable javascript to browse this site.

Message from the Chair Stony Brook on Long Island Maps and Directions Open Positions The Birthplace of MRI Alumni Safety Staff Web Management

News Seminars Calendar Calendar of Events

Alphabetical Listing Listing by Speciality

Graduate Program Admissions ACES Project Courses Career Opportunities The Professional Environment FAQs Undergraduate Program Programs Course Descriptions Course Websites Research Undergraduate-FAQ

ICB&DD CEMS Brookhaven National Lab Materials Nanotechnology Infectious Diseases Computational Biology

NMR facility MS facility Health Science Facilities Brookhaven Facilities

Jin Wang
Associate Professor (Chemistry and Physics)

B.S., (Physics) 1984, Jilin University, China;

Ph.D. (Astrophysics) 1991, University of Illinois;

Post Doctor Research Associate (Chemistry and Biological physics ), 1991-1996, University of Illinois;

Guest Scientist, 1996-1997, National Institutes of Health;

Vice President and Senior Analyst, 1997-2005, Citibank;

Adjunct Professor (Physics and Credit Management), 1997-present, Jilin University, China;

Adjunct Professor (Chemistry), 1999-2004, SUNY Stony Brook;

Adjunct Professor, 2002-present, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences;

National Science Foundation Career Award, 2005.

Adjunct Professor (Applied Mathematics), 2006-present, SUNY Stony Brook;

Adjunct Professor (Harriman College of Business), 2008-present, SUNY Stony Brook.

Phone: (631) 632-1185; Fax: (631) 632-7960;
E-mail: jin.wang.1@stonybrook.edu

Physics and Chemistry of Biomolecules, Cellular Networks and Single Molecules

The main focus of my research is on the study of the fundamental mechanism of biomolecular folding and recognition, especially protein folding and protein-protein/protein-DNA interactions. Using modern statistical mechanics, molecular simulations and empirical information from protein database, energy landscapes of protein folding and recognition can be mapped. By further studying the detailed structure correlations of the landscape, the fundamental questions such as nucleations and nature of transition state ensemble can be answered for different proteins and biomolecular recognition complexes. The results of the study can be compared with the experiments. The energy landscape description of protein folding and recognition will also provide insight of new algorithms of structure prediction and drug design.

I am also interested in the study of the underlying principles of the cellular networks. In particular, I am interested in the nature of the robustness of the cellular networks in the noisy fluctuating environments. I am also interested in understanding and quantifying the dynamics and pathways of the cellular networks. These studies should lead to optimal design and evolution of the networks.

Another focus of my study is on the reaction dynamics in complex environments, specifically biomolecular reactions and interactions where the reaction happens in a relatively fast or comparable time scale relative to the environmental fluctuations. A path integral formalism is developed for the full treatment of the problem. Potential application of this method includes electron transfer in proteins, ligand binding, reaction dynamics in complex solvents.

I am also interested in the study of single molecule reaction dynamics. The single molecule detection provides us detailed picture of molecular reactions without ensemble average. It is also a sensitive probe to the local environments. It can help us to pin down the reaction pathways. Since the single molecule has only one sample, the statistical fluctuations normally ignored under the situation of large samples may not be neglected. Quantitative study of the statistics of single molecule reaction dynamics is very necessary and underway in order to understand the whole picture.

PUBLICATIONS OF JIN WANG

79. J. Wang, C. Li, E. K. Wang, X.D. Wang, “Uncovering the rules for protein–protein interactions from yeast genomic data.” Proc. Natl. Acad. Sci. 106, 3752–3757 (2009).

78. Q. Lu, and J. Wang, “Kinetics and Statistical Distributions of Single-Molecule Conformational Dynamics.” J. Phys. Chem. B, 113, 1517-1521(2009).

77. L. C. Paula, J. Wang, and V. B. P. Leite, “Statistics and kinetics of single-molecule electron transfer dynamics in complex environments: A simulation model study.” J. Chem. Phys. 129, 224504 (2008).

76. J. Wang, L. Xu, E.K. Wang, “Robustness, Dissipations and Coherence of the Oscillation of Circadian Clock: Potential Landscape and Flux Perspectives.’’ PMC Biophysics, 1, 7(2008)

75. Y. Chen, J. Jakoncic, J. Wang, X. Zheng, N. Carpino, N. Nassar, “Structural and Functional Characterization of the C-terminal Domain of the Ecdysteroid Phosphate Phosphatase from Bombyx mori reveals a new enzymatic activity’’, Biochemistry 47, 12135-12145 (2008)

74. J. Wang, L. Xu, K. Xue, E.K. Wang, “Exploring the origin of power law distribution in single-molecule conformation dynamics: Energy landscape perspectives’’, Chem. Phys. Lett. 463, 405–409(2008)

73. J. Wang, K. Zhang, and E. K. Wang, “Robustness and dissipation of mitogen-activated protein kinases signal transduction network: Underlying funneled landscape against stochastic fluctuations’’, J. Chem. Phys. 129, 135101(2008).

72. J. Wang, L. Xu, E. K. Wang, “Potential Landscape and Flux Framework of Non-Equilibrium Networks: Robustness, Dissipation and Coherence of Biochemical Oscillations” Proc. Natl. Acad. Sci. 105: 12271-12276. (2008).

71. D. Lepzelter, J. Wang, “Exact probabilistic solution of spatial-dependent stochastics and associated spatial potential landscape for the bicoid protein”, Phys. Rev. E. 77, 041917(2008).

70. Q. Lu, J. Wang, “Single Molecule Conformational Dynamics of Adenylate Kinase: Energy Landscape, Structural Correlations, and Transition State Ensembles”, J. Amer. Chem. Soc. 130, 4772(2008).

69. S. Lapidus, B. Han, J. Wang, “Intrinsic noise, dissipation cost, and robustness of cellular networks: The underlying energy landscape of MAPK signal transduction”, Proc. Natl. Acad. Sci. 105, 6039(2008).

68. B. Han, J. Wang, “Least dissipation cost as a design principle for robustness and function of cellular networks”, Phys. Rev. E 77, 031922 (2008).

67. D. Li, G. Li, W. Guo, P. Li, E. Wang, J. Wang, "Glutathione-mediated release of functional plasmid DNA from positively charged quantum dots", Biomaterials 29, 2776–2782(2008).

66. E. Ying, D. Li, S. Guo, S. Dong, J. Wang, "Synthesis and Bio-Imaging Application of Highly Luminescent Mercaptosuccinic Acid-Coated CdTe Nanocrystals", PLOS One, 3, e2222(2008).

65. Z. J. Liu, X. Zheng, J. Wang, E. K. Wang, “Molecular Analysis of Thymopentin Binding to HLA-DR Molecules”, PLOS One, 2(12), e1348(2007).

64. J. Wang, X. Zheng, Y. Yang, D. Drueckhammer, W. Yang, G. Verkhivker, E. K. Wang, “Quantifying intrinsic specificity: A potential complement to affinity in drug screening’’, Phys. Rev. Lett. 99, 198101 (2007).

63. J. Chahine, R. J. Oliveira, V. B. P. Leite, and J. Wang, “Configuration-dependent diffusion can shift the kinetic transition state and barrier height of protein folding”, Proc. Natl. Acad. Sci. 104, 14646 (2007)

62. D. Lepzelter, K. Kim, J. Wang, “Dynamics and Intrinsic Statistical Fluctuations of a Gene Switch”, J. Phys. Chem. B, 111, 10239(2007).

61. J. Wang, L. Xu, E. K. Wang, “Optimal Specificity and Function for Flexible Biomolecular Recognition”, Biophys. J. Lett. 92, L109(2007).

60. B. Han, J. Wang, “Quantifying Robustness and Dissipation Cost of Yeast Cell Cycle Network: The Funneled Energy Landscape Perspectives’’, Journal Cover Article, Biophys. J., 92, 3755 (2007).

59. K. Kim, J. Wang, “Potential Energy Landscape and Robustness of A Gene Regulatory Network: Toggle Switch’’, PLOS Comp. Biol., 3, e60 (2007).

58. Q. Lu, P. H. Lu, J. Wang, “Exploring the mechanism of flexible biomolecular recognition with single molecule dynamics’’, Phys. Rev. Lett. 98, 128105(2007).

57. K. Kim, D. Lepzelter, J. Wang, “Single Molecule Dynamics and Statistical Fluctuations of Gene Regulatory Networks: A Repressilator’’, J. Chem. Phys. 126, 034702(2007).

56. J. Wang, K. Zhang, H.Y. Lu, E. K. Wang, "Quantifying the Kinetic Paths of Flexible Biomolecular Recognition", Biophys. J. 91, 866(2006).

55. Y. Wang, L. Gan, H. Chen, S. Dong, J. Wang, ``Structure and Identity of 4,4'-Thiobisbenzenethiol Self-Assembled Monolayers'', J. Phys. Chem. B. 110, 20418(2006).

54. J. Wang, B. Huang, X. F. Xia, Z. R. Sun, “Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle", PLOS Comp. Biol. 2. e147, 1385(2006).

53. J. Wang, Q. Lu, P. Lu, “Single-Molecule Dynamics Reveals Cooperative Binding-Folding in Protein Recognition”, PLOS Comp. Biol. 2, e78, 0842(2006)

52. J. Wang, “Diffusion and Single Molecule Dynamics on Biomolecular Interface Binding Energy Landscape”, Chem. Phys. Lett. 418, 540(2006).

51. J. Wang, B. Huang, X. F. Xia, Z. R. Sun, “Funneled Landscape Leads to Robustness of Cellular Networks: MAPK Signal Transduction'', Biophys. J. Lett. 91, L54(2006).

50. J. Wang, K. Zhang, H. Y. Lu, E. K. Wang, “Identifying the Kinetic Paths on Biomolecular Binding-Folding Energy Landscape”, Phys. Rev. Lett. 96, 168101(2006).

49. J. E. M. Hornos, D. Schultz, G. C. P. Innocentini, J. Wang, A. M. Walczak, J. N. Onuchic, and P. G. Wolynes, “Self-Regulating Gene: An Exact Solution,” Phys. Rev. E. 72, 051907(2005).

48. V. B. P. Leite, L. C. P. Alonso, M. Newton, and J. Wang, “Single Molecule Electron Transfer Dynamics in Complex Environments .” Phys. Rev. Lett. 95, 118301(2005).

47. J. Wang, K. Zhang, H. Y. Lu, and E.K. Wang, “Quantifying Kinetic Paths of Protein Folding,” Biophys. J. 89, 1612–1620(2005).

46. J. Wang, C. Lee, G. Stell, “The cooperative nature of hydrophobic forces and protein folding kinetics,” Chemical Physics 316, 53–60(2005).

45. J. Wang, “The Complex Kinetics of Protein Folding in Wide Temperature Ranges,” Biophys. J. 87, 2164(2004).

44. J. Wang, W. M. Huang, H. Y. Lu, and E. K. Wang, “Downhill Kinetics of Biomolecular Interface Binding-Global Connected Scenario,” Biophys. J. 87, 2187 (2004).

43. V. B.P. Leite, J.N. Onuchic, G. Stell, and J. Wang, “Probing the Kinetics of Single Molecule Protein Folding,” Biophys. J. 87, 3633 (2004).

42. Y. Zhou, Q. Zhang, G. Stell, J. Wang, ``Temperature Dependence of the distribution of the First Passage Time, Results from Discontinuous Molecular Dynamics Simulations of an All Atom Model of the Second Beta Hairpin Fragment of Protein G'', J. Amer. Chem. Soc. 125, 6300(2003)

41. C. L. Lee, C. T. Lin, G. Stell, J. Wang, ``Diffusion Dynamics, Moments and Distributions of First Passage Time on Protein Folding Energy Landscapes, with Applications to Single Molecules '', Phys. Rev. E. 67, 41905(2003)

40. J. Wang, G. M. Verkhivker, `` Energy Landscape Theory, Funnels, Specificity and Optimal Criterion of Biomolecular Binding'', Phys. Rev. Lett. 90, 188101(2003)

39. C. L. Lee, G. Stell, J. Wang, ``First Passage Time Distribution and Non-Makovian Dynamics of Protein Folding'', J. Chem. Phys. 118, 959(2003)

38. J. Wang , ``Statistics, Pathways and Single Molecule Folding'', J. Chem. Phys. 118, 952(2003)

37. J. Wang, X. D. Wang, “Some Thoughts on the Credit Bureaus and National Credit Systems in China”, China Credit Card, 7(2002).

36. J. Lin, J. Wang, “Demand for Credit Rises in China -But Where Is the Infrastructure?” Credit Risk International, 11, 24(2002).

35. J. Wang, Preface for “Consumer Credit Management’’ by Junyue Lin, Huicheng Credit Management Book Series, China Fangzheng Pub. (2002).

34. J. Wang, P. G. Wolynes, " Reaction Diffusion Description of Intermittency of Single Molecule Reaction Dynamics in Fluctuating Environments ", J. Chem. Phys. 110, 4812, (1999).

33. B. A. Shoemaker, J. Wang, P. G. Wolynes, " Exploring Structures in Protein Folding Funnels with Free Energy Functionals: The Transition State Ensemble", B. A. Shoemaker, J. Wang, P. G. Wolynes, J. Mol. Biology 287, 675 (1999).

32. J. N. Onuchic, J. Wang, P. G. Wolynes, "Analyzing Single Molecule Trajectories on Complex Energy Landscapes Using Replica Correlation Function", Chem. Phys. 247,175 (1999).

31. S. S. Plotkin, J. Wang, P. G. Wolynes, "Statistical Thermodynamics of Correlated Energy Landscape", Physica D 107, 322(1997).

30. S. Okazaki, J. Wang, S. A. Schofield, P. G. Wolynes, "Quantum Twinkling: Fluctuation and Coherence through the High Order Moments of the Wave Function", Chem. Phys. 222, 175(1997).

29. S. S. Plotkin, J. Wang, P. G. Wolynes, "Statistical Mechanics of a Correlated Energy Landscape Model for Protein Folding Funnels", J. Chem. Phys. 106, 2932 (1997).

28. J. Wang, S. S. Plotkin, P. G. Wolynes, " Configurational Diffusion in a Locally Connected Correlated Energy Landscape Model for Random heteropolymers", J. de. Physique. 7, 395(1997).

27. B. A. Shoemaker, J. Wang, P. G. Wolynes, "Structure Correlations in Protein Folding Funnels", Proc. Natl. Acad. Sci. 94, 777(1997).

26. J. Wang, J. G. Saven, P. G. Wolynes, "Kinetics in a Globally Connected, Correlated Random Energy Model", J. Chem. Phys. 105, 11276 (1996).

25. J. Wang, P. G. Wolynes, " Instantons and the Fluctuating Path Description of Reactions in Complex Biological Environments", J. Physical Chemistry, 100, 1129(1996).

24. J. Wang, J. N. Onuchic, P. G. Wolynes, " Statistics and Kinetic Pathways of Protein Folding on Complex Energy Landscapes", Phys. Rev Lett. 76, 4861(1996).

23. S. Plotkin, J. Wang, P. G. Wolynes, " A Correlated Energy Landscape Model for Finite, Random Heteropolymers", Phys. Rev. E. 53, 6271(1996).

22. A. R. Panchenko , J. Wang, G. U. Nienhaus, P. G. Wolynes, " Dynamics of Binding of Myglobin and CO Ligand", Biophys. J. 68, A82 (1995).

21. J. Wang, P. G. Wolynes, "Reaction Dynamics in Fluctuating Proteins'', Proceedings of 19th IUPAP on Statistical Physics (1995).

20. A. R. Panchenko, J. Wang, G. U. Nienhaus, P. G. Wolynes, "Analysis of Ligand Binding to Heme Proteins Using a Fluctuating Path Description'', J. Phys. Chem. 99, 9278(1995).

19. J. Wang, P. G. Wolynes, "Intermittency of Single Molecule Reaction Dynamics in Fluctuating Environments", Phys. Rev. Lett. 74, 4317 (1995).

18. H. Bohr, J. Wang, P. G. Wolynes, "Growth of Domains in Distance Geometry through Protein Folding", Proceedings of Protein Structure by Distance Analysis, (IOS Press, Amesterdam, 1994).

17. J. Wang, P. G. Wolynes, "Survival Path for Reaction Dynamics in Fluctuating Environment", Chem. Phys. 180, 141(1994).

16. J. G. Saven, J. Wang, P. G. Wolynes, "Kinetics of Protein Folding: the Dynamics of Globally Connected Rough Energy Landscapes with Biases", J. Chem. Phys. 101, 11037(1994).

15. J. Wang, P. G. Wolynes, "Passage Through Fluctuating Barrier-General Gaussian Case", Chem Phys. Lett. 212, 427 (1993).

14. J. Wang, A. Hubler , " Control of Chaos for Solitons", Proceedings of Santa Fe Complex System Summer School (1991).

13. J. Wang, "Quantum Cosmology of Supersymmetric Strings", Phys. Rev. D. 45, 412 (1992).

12. J. Wang, "Ten Dimensional Supergravity Wormhole", Astrophysics and Space Science 189, 5 (1992).

11. J. Wang, "Constraints of Axion Mass from White Dwarf Cooling", Modern Phys. Lett. A. 7, 1497(1992).

10. J. Wang, "Constraints of Axion Mass from Carbon Oxygen Burning Stage of Stellar Evolution", Phys. Lett. B 291, 97(1992).

9. J. Wang, "Constraints of Neutrino Magnetic Moment from White Dwarf Cooling", Astrophysics and Space Science 189, 1 (1992).

8. J. Wang, S. Mohanty , "Quantum Cosmology of String Theory", Phys. Lett. B. 269, 279 (1991).

7. J. Wang, "Cosmic Strings in the Sun?", Modern Physics Letters A. 6, 2101(1991).

6. J. Wang, "Astrophysical Constraints of Gravitational Constant", Astrophysics and Space Science 184, 31(1991).

5. J. Wang, "Bounds on KSVZ Axions from High Mass Star Evolution", Astrophysics and Space Science 184, 1(1991).

4. J. Wang, "Primordial Magnetic Field and Density Fluctuation from Early Universe Phase Transition" , AIP Proceedings 222 "After the First Three Minutes" (1991).

3. D. Chang, A. Kumar, J. Wang, "Search For Extended Conformal Algebra", Modern Physics Letters. A. 5, 1511(1990).

2. D. Chang, A. Kumar, J. Wang, "Heterotic Conformal Field Theory and Gepner's Construction", Phys. Rev. D. 42, No. 8, 2694 (1990).

1. J. Haglin, S. Kelly, J. Wang, "On the Analysis of Flavour Changing Neutral Current From SUS Y", BNL Workshop Proceedings on Rare K decays and CP violation (1988).