BIBLIOGRAPHY

1. K.C. Pan, K.K. Hong, Yi-der Chen, and C.T. Chang. Preparation of Carrier-free sodium-24 by and Reactions. J. Chinese Chem. Soc. 11, 135-138 (1964).

2. Yi-der Chen. (Thesis): Gamma Ray Induced Copolymerization of Styrene and Methyl Methacrylate. M.S. Degree, National Tsing Hua University (1965).

3. Yi-der Chen and W.A. Steele. Statistical Mechanics of Linear Molecules. III. Hard Core Model. J. Chem. Phys. 50. 1428-1436 (1969).

4. Yi-der Chen. (Thesis): Theory of Fluids of Nonspherical Molecules. Ph.D. Degree, The Pennsylvania State University (1969).

5. Yi-der Chen and W.A. Steele. Statistical Mechanics of Linear Molecules, V. Pressure Viral Coefficients. J. Chem. Phys. 52, 5284-5286 (1970).

6. T.L. Hill and Yi-der Chen. Cooperative Effects in Models of Steady-state Transport Across Membranes, I. Proc. Natl. Acad. Sci., USA 65, 1069-1076 (1970).

7. T.L. Hill and Yi-der Chen. Cooperative Effects in Models of Steady-state Transport across Membranes, II. Oscillating Phase Transition. Proc. Natl. Acad. Sci., 66, 189-196 (1970).

8. T.L. Hill and Yi-der Chen. Cooperative Effects in Models of Steady-state Transport Across Membranes, III. Simulating the Transport of Potassium. Proc. Natl. Acad. Sci., 66, 607-614 (1970).

9. Yi-der Chen and W.A. Steele. Statistical Mechanics of Linear Molecules, VI. Solutions of the Percus-Yevick Integral Equation for a Hard-Core Model. J. Chem. Phys. 54, 703-710 (1971).

10. T.L. Hill and Yi-der Chen. Cooperative Effects in Models of Steady-state Transport Across Membranes, IV. One-site, Two-site, and Multisite Models. Biophys. J. 11, 685-710 (1971).

11. T.L. Hill and Yi-der Chen. On the Theory of Ion Transport Across the Nerve Membrane, II. Potassium Ion Kinetics and Cooperativity (with x=4). Proc. Natl. Acad. Sci. 68, 1711-1715 (1971).

12. T.L. Hill and Yi-der Chen. On the Theory of Ion Transport Across the Nerve Membrane, III. Potassium Ion Kinetics and Cooperativity (with x=4,6,9). Proc. Natl. Acad. Sci. 68, 2488-2492 (1971).

13. T.L. Hill and Yi-der Chen. On the Theory of Ion Transport Across the Nerve Membrane, IV. Noise from the Open-Close Kinetics of K⁺ Channels. Biophys. J. 12, 948-959 (1972).

14. T.L. Hill and Yi-der Chen. On the Theory of Ion Transport Across the Nerve Membrane, V. Two Models for the Cole-Moore K⁺ Hyper-polarization Delay. Biophys. J. 12, 960-976 (1972).

15. T.L. Hill and Yi-der Chen. On the Theory of Ion Transport Across the Nerve Membrane, VI. Free Energy and Activation Free Energies of Conformational Change. Proc. Natl. Acad. Sci. 69, 1723-1726 (1972).

16. Yi-der Chen and T.L. Hill. On the Theory of Ion Transport Across the Nerve Membrane, VII. Cooperativity between Channels of a Large Square Lattice. Proc. Natl. Acad. Sci. 70, 62-65 (1973).

17. Yi-der Chen and T.L. Hill. Fluctuation and Noise in Kinetic Systems: Application to K⁺ Channels in the Squid Axon. Biophys. J. 13, 1276-1295 (1973).

18. T.L. Hill and Yi-der Chen. Theory of Aggregation in Solution, I. General Equations and Application to the Stacking of Bases, Nucleosides, etc.. Biopolymer 12, 1285-1312 (1973).

19. N. Saito and Yi-der Chen. Statistics of a Random Coil Chain in the Presence of a Point (2-dimensional case) and a Line (3-dimensional case) Obstacle. J. Chem. Phys. 59, 3701-3709 (1973).

20. Yi-der Chen. Fluctuation and Noise in Kinetic Systems, II. Open Ensembles at Equilibrium and Steady-state. J. Chem. Phys. 59, 5810-5813 (1973).

21. Yi-der Chen and T.L. Hill. Analysis of a Simple Prototypal Muscle Model Near to and Far from Equilibrium. Proc. Natl. Acad. Sci. 71, 1982-1986 (1974).

22. T.L. Hill and Yi-der Chen. Further Analysis of a Simple Prototypal Muscle Model Near to and Far from Equilibrium. Proc. Natl. Acad. Sci. 71, 2478-2481 (1974).

23. T.L. Hill, E. Eisenberg, Yi-der Chen, and R.J. Podolsky. Some Self-Consistent Two-state Model of Muscle Contraction. Biophys. J. 15, 335-372 (1975).

24. T.L. Hill and Yi-der Chen. Stochastics of Cycle Completions (fluxes) in Biochemical Kinetic Diagrams. Proc. Natl. Acad. Sci. 72, 1291-1295 (1975).

25. Yi-der Chen. Phenomenological Coefficients and General Proof of Reciprocal Relations for a Certain Class of Sliding Filament Model of Muscle Contraction. J. Theoret. Biol. 51, 419-428 (1975).

26. Yi-der Chen. Fluctuations and Noise in Kinetic Systems, III. Cycling Steady-state. J. Theoret. Biol. 55, 229-243 (1975).

27. Yi-der Chen. Matrix Method for Fluctuations and Noise in Kinetic Systems. Proc. Natl. Acad. Sci. 72, 3807-3811 (1975).

28. Yi-der Chen. Differentiation of Channel Models by Noise Analysis. Biophys. J. 16, 965-971 (1976).

29. Yi-der Chen. Fluctuations and Noise in Nonlinear Kinetic Systems. J. Theoret. Biol. 65, 357-367 (1977).

30. Yi-der Chen. The Irreversible Thermodynamic Approach to the Fluctuation in Chemical Reactions. J. Chem. Phys. 66, 2431-2434 (1977).

31. Yi-der chen. Noise Analysis and Channel Properties. Annals N.Y. Acad. Sci. 303, 382-388 (1977).

32. I.W. Plesner and Yi-der Chen. Determination of Number of Independent Variables in Kinetic Systems. J. Chem. Phys. 67, 5491-5492 (1978).

33. Yi-der Chen. Differentiation between Equilibrium and Nonequilibrium Kinetic Systems by Noise Analysis. Biophys. J. 21, 279-285 (1978).

34. Yi-der Chen. Further Studies on Noise and Fluctuations in Kinetic Systems. J. Chem. Phys. 68, 1871-1875 (1978).

35. T.L. Hill and Yi-der Chen. Interacting Enzyme Systems at Steady-state: Location of the Phase Transition in Approximations of the Mean Field Type. Proc. Natl. Acad. Sci. 75, 3015-3019 (1978).

36. T.L. Hill and Yi-der Chen. Monte Carlo Calculations on Critical Behavior in Two-state Steady-state Ising Systems. J. Chem. Phys. 69, 1126-1132 (1978).

37. T.L. Hill and Yi-der Chen. Interacting Enzyme Systems at Steady-state: Further Monte Carlo Calculations on Two-state Molecules. Proc. Natl. Acad. Sci. 75, 5260-5264 (1978).

38. Yi-der Chen. Noise Analysis in Kinetic Systems and its Application to Membrane Channels. Adv. Chem. Phys. 37, 67-96 (1978).

39. Yi-der Chen. On the Admittance of Membranes Associated with Channel Conduction. Application to Channels at Nonequilibrium Steady State. J. Theoret. Biol. 81, 633-643 (1979).

40. E. Eisenberg, T.L. Hill and Yi-der Chen. Cross-Bridge Model of Muscle Contraction: A Quantitative Analysis. Biophys. J. 29, 195-227 (1980).

41. T.L. Hill and Yi-der Chen. Three-State Steady-state Ising Systems: Monte Carlo and Bragg-William Treatments. Proc. Natl. Acad. Sci. 78, 4-6 (1981).

42. Yi-der Chen. Monte Carlo Study of Freely-Jointed Ring Polymers, I. Generation of Ring Polymers by Dimerization Method. J. Chem. Phys. 74, 2034-2038 (1981).

43. Yi-der Chen. Monte Carlo Study of Freely-Jointed Ring Polymers, II. The Writhing Numbers. J. Chem. Phys. 75, 2447-2453 (1981).

44. Yi-der Chen. Monte Carlo Study of Freely-Jointed Ring Polymers, III. The Generation of Undistorted Perfect Ring Polymers. J. Chem. Phys. 75, 5160-5165 (1981).

45. Yi-der Chen. On the Transport Noise of Hydrophobic Ions in Lipid Bilayer Membranes. Biophys. Chem. 75, 87-95 (1983).

46. Yi-der Chen. On the Ring-to-Chain Ratio of Radii of Gyration and Sedimentation Coefficients of Polymers of the Freely-Jointed Model: Monte Carlo Calculations and the -Method. J. Chem. Phys. 78, 5191-5196 (1983).

47. Yi-der Chen and T.L. Hill. Use of Monte Carlo Calculations in the Study of Microtubule Subunit Kinetics. Proc. Natl. Acad. Sci. 80, 7520-7523 (1983).

48. M-F. Carlier, T.L. Hill and Yi-der Chen. Interference of GTP Hydrolysis in the Mechanism of Microtubule assembly: An Experimental Study. Proc. Natl. Acad. Sci. 81, 771-774 (1984).

49. T.L. Hill and Yi-der Chen. Phase Changes at the End of a Microtubule with a GTP Cap. Proc. Natl. Acad. Sci. 81, 5772-5775 (1984).

50. H.V. Westerhoff and Yi-der Chen. How Do Enzyme Activities Control Metabolite Concentration? An Additional theorem in the Theory of Metabolic Control. Eur. J. Biochem. 142, 425-430 (1984).

51. Yi-der Chen and T.L. Hill. Monte Carlo study of GTP Cap in a Five-Start Helix Model of a Microtubule. Proc. Natl. Acad. Sci. 82, 1131-1134 (1985).

52. H.V. Westerhoff and Yi-der Chen. Stochastic Free Energy Transduction. Proc. Natl. Acad. Sci. 82, 3222-3226 (1985).

53. T.L. Hill and Yi-der Chen. Anomalous Properties of a Small-Volume Membrane Transport System at Steady State. Proc. Natl. Acad. Sci. 82, 3654-3656 (1985).

54. Yi-der Chen and T.L. Hill. Theoretical Treatment of Microtubules Disappearing in Solution. Proc. Natl. Acad. Sci. 82, 4127-4131 (1985).

55. Yi-der Chen and H.V. Westerhoff. How Do Inhibitors and Modifiers of Individual Enzymes Affect Steady-state Fluxes and Concentrations in Metabolic Systems? Math. Modelling 7, 1173-1180 (1986).

56. Yi-der Chen, A. Maxwell and H.V. Westerhoff. Cooperativity and Enzymatic Activity in Polymer-activated Enzymes. A One-dimensional Piggy-Back Binding Model and Its Application to the DNA-dependent ATPase of DNA Gyrase. J. Mol. Biol. 189, 201-214 (1986).

57. Yi-der Chen. A Theoretical study of Dual-Inhibitor-Titration Curves in Free-Energy Transducing Networks. Biochem. Biophys. Acta 850, 490-500 (1986).

58. H.V. Westerhoff, T.Y.Tsong, P.B. Chock, Yi-der Chen, and R.D. Astumian. How Enzymes can Capture and Transmit Free Energy From an Oscillating Electric Field? Proc. Natl. Acad. Sci. 83, 4734-4738 (1986).

59. R.D. Astumian, P.B. Chock, T.Y. Tsong, Yi-der Chen, and H.V. Westerhoff. Can Free Energy be Transduced from Electrical Noise? Proc. Natl. Acad. Sci. 84, 434-438 (1987).

60. Yi-der Chen. Asymmetry and External Noise-Induced Free Energy Transduction. Proc. Natl. Acad. Sci. 84, 729-733 (1987).

61. Yi-der Chen. Binding of n-mers to One-Dimensional Lattice with Longer Than Close-Contact Interactions. Biophys. Chem. 27, 59-65 (1987).

62. M-F. Carlier, R. Melki, D. Pantaloni, T.L. Hill, and Yi-der Chen. Synchronous Oscillation in Microtubule Polymerization. Proc. Natl. Acad. Sci. 84, 5257-5261 (1987).

63. Yi-der Chen. Free Energy Transduction in Membrane Transport Systems Induced by Externally Imposed Fluctuations in Ligand Concentrations. Biochem. Biophys. Acta 902, 307-316 (1987).

64. Yi-der Chen and T.L. Hill. Theoretical Studies on Oscillations in Microtubule Polymerization. Proc. Natl. Acad. Sci. 84, 8419-8423 (1987).

65. Yi-der Chen and T.L. Hill. Theoretical Calculation Methods for Kinesin in Fast Axonal Transport. Proc. Natl. Acad. Sci. 85, 431-435 (1988).

66. Yi-der Chen. Asymmetry and Free Energy Transduction in Biology. Cell Biophys. 12, 87-104 (1988).

67. F. Kamp, Yi-der Chen and H.V. Westerhoff. Energization Induced Redistribution of Charge Carriers Near Membranes. Biophys. Chem. 30, 113-132 (1988).

68. R. Blumenthal, A. Puri, D.P. Sarkar, Yi-der Chen, O.Eidelman, and S.J. Morris. Membrane Fusion Mediated by Viral Spike Glycoproteins. In: Cell Biology of Virus Entry, Replication and Pathogenesis. UCLA Symposia on Molecular and Cellular Biology, Vol. 90, 197-217 (1989). (eds. R. Compans, A. Helenius, and M. Oldstone).

69. Yi-der Chen and R. Blumenthal. On the Use of Self-Quenching Fluorophores in the Study of Membrane Fusion Kinetics: The Effect of Slow Probe Redistribution. Biophys. Chem. 34, 283-292 (1989).

70. Yi-der Chen. The Diagram Methods for the Evaluation of Exchange Fluxes in Membrane Transport Systems. Biophys. Chem. 35, 55-63 (1990).

71. R.J. Lowy, D.P. Sarkar, Yi-der Chen, and R. Blumenthal. Observation of Single Influenza Virus-Cell Fusion and Measurement by Fluorescence Video Microscopy. Proc. Natl. Acad. Sci. 87, 1850-1854 (1990).

72. R.J. Rubin and Yi-der Chen. Diffusion and Redistribution of Lipid-Like Molecules between Membranes in Virus-Cell and Cell-Cell Fusion Systems. Biophys. J. 58, 1157-1167 (1990).

73. Yi-der Chen. A general Secular Equation for Cooperative Binding of n-mer Ligands to a One-Dimensional Lattice. Biopolymer 30, 1113-1121 (1990).

74. Yi-der Chen and J.M. Chalovich. A Mosaic Multiple-Binding Model for the Binding of Caldesmon and Myosin Subfragment-1 to Actin. Biophys. J. 63, 1063-1070 (1992).

75. Yi-der Chen and B, Brenner. On the Regeneration of the Actin-Myosin Power Stroke in Contracting Muscle. Proc. Natl. Acad. Sci. 90, 5148-5152 (1993).

76. Yi-der Chen, R.J. Rubin, and A. Szabo. Fluorescence Dequenching Kinetics of Single Cell-Cell Fusion Complexes. Biophys. J. 65, 325-333 (1993).

77. Laly Velaz, Yi-der Chen, and J. M. Chalovich. Characterization of a Caldesmon Fragment That Competes with Myosin-ATP Binding to Actin. Biophys. J. 65, 892-898 (1993).

78. Yi-der Chen and T. Y. Tsong. On the Efficiency and Reversibility of Active Ligand Transport Induced by Alternating Rectangular Electric Pulses. Biophys. J. 66, 2151-2158 (1994).

79. T. D. Xie, P. Marszalek, Yi-der Chen, and T. Y. Tsong. Recognition and Processing of Randomly Fluctuating Electric Signals by . Biophys. J. 67, 1247-1251 (1994).

80. J. M. Chalovich, Yi-der Chen, R. Dudek, & H. Luo. Kinetics of Binding of Caldesmon to Actin. J. Biological Chem. 270, 9911-9916 (1995).

81. H.-X. Zhou and Yi-der Chen. Chemically Driven Motility of Brownian Particles. Phys. Rev. Lett. 77, 194-197 (1996).

82. T. D. Xie, Yi-der Chen, P. Marszalek, and T. Y. Tsong. Fluctuation-Driven Directional Flow in Biochemical Cycle: Further Study of Electric Activation of Na,K Pumps. Biophys. J. 72, 2496-2502 (1997).

83. Yi-der Chen. Asymmetric Cycling and Biased Movement of Brownian Particles in Fluctuating Symmetric Potentials. Phys. Rev. Lett. 79, 3117-3120 (1997).

84. J. M. Chalovich, A. Sen, A. Restar, B. Leiweber, R. S. Fredricksen, F. Lu, and Yi-der Chen. Caldesmon: binding to actin and myosin and effects on elementary steps in the ATPase cycle. Acta Physiol. Scand. 164, 427-435 (1998).

85. Yi-der Chen, B. Yan, and R. Miura. Asymmetry and direction reversal in fluctuation-induced biased Brownian motion. Phys. Rev. E. 60, 3771-3775 (1999).

86. Yi-der Chen. Theoretical formalism for kinesin motility I. Bead movement powered by single one-headed kinesins. Biophys. J. 78, 313-321 (2000).

87. Yi-der Chen, B. Yan, J. M. Chalovich, and B. Brenner. Theoretical kinetic studies of models for binding myosin subfragment-1 to regulated actin: Hill model vs Geeves model. Biophys. J. 80, 2338-2349 (2001).

88. A. Sen, Yi-der Chen, Bo Yan, and J. M. Chalovich. Caldesmon reduces the apparent rate of binding of myosin S1 to actin-tropomyosin. Biochemistry 40, 5757-5764 (2001).

89. B. Yan, R. M. Miura, and Yi-der Chen. Direction reversal of fluctuation-induced Brownian motion on distorted ratchets. J. Theoret. Biol. 210, 141-150 (2001).

90. Yi-der Chen and B. Yan. Theoretical formalism for bead movement powered by single two-headed motors in a motility assay. Biophysical Chemistry 91, 79-91 (2001).

91. Yi-der Chen, Bo Yan, and Robert Rubin. Fluctuations and randomness of movement of the bead powered by a single kinesin in a force-clamped motility assay- Monte Carlo simulations. Biophys. J. (submitted).

91. B. Yan and Yi-der Chen. Molecular dynamics simulations of nucleotide-dependent kinesin in solution. Biophys. J. (submitted).

92. B. Yan, Yi-der Chen, A. Sen, and J. M. Chalovich. Kinetics of Binding of Caldesmon and Myosin Subfragment-1 to Actin: Differentiation between the Pure Competitive and the Mosaic Multiple Binding Models. Biophys. J. (submitted).

93. Yi-der Chen, B. Yan. Power stroke and load-dependent mechanochemical cycle of kinesin motors (in preparation).