H. Qian

发表

Thermodynamics of the general diffusion process: Equilibrium supercurrent and nonequilibrium driven circulation with dissipation

H. Qian, Hong Qian, 2014, 1412.5925.

The zeroth law of thermodynamics and volume-preserving conservative system in equilibrium with stochastic damping

H. Qian, 2012, 1206.7079.

Fixation, transient landscape, and diffusion dilemma in stochastic evolutionary game dynamics.

H. Qian, Da Zhou, 2011, Physical review. E, Statistical, nonlinear, and soft matter physics.

Cellular Biology in Terms of Stochastic Nonlinear Biochemical Dynamics: Emergent Properties, Isogenetic Variations and Chemical System Inheritability

H. Qian, 2010 .

A decomposition of irreversible diffusion processes without detailed balance

H. Qian, 2012, 1204.6496.

Thermodynamics of the General Diffusion Process: Time-Reversibility and Entropy Production

H. Qian, M. Qian, Xiang Tang, 2002 .

Universal ideal behavior and macroscopic work relation of linear irreversible stochastic thermodynamics

Yian Ma, Yi-An Ma, H. Qian, 2015, 1503.06232.

Landscapes of non-gradient dynamics without detailed balance: stable limit cycles and multiple attractors.

H. Qian, Hao Ge, 2010, Chaos.

Sensitivity Regulation based on Noise Propagation in Stochastic Reaction Networks

K. Kim, H. Sauro, H. Qian, 2008, 0805.4455.

Nonlinear Oscillations and Multiscale Dynamics in a Closed Chemical Reaction System

H. Qian, Yongfeng Li, Y. Yi, 2010 .

Thermodynamic constraints for biochemical networks.

H. Qian, E. Babson, D. Beard, 2004, Journal of theoretical biology.

Analytic theory of stochastic oscillations in single-cell gene expression

Michael Q. Zhang, H. Qian, Chen Jia, 2019, 1909.09769.

Chromatin looping and the probability of transcription.

Hong Qian, H. Qian, Qiliang Li, 2006, Trends in genetics : TIG.

Relaxation rates of gene expression kinetics reveal the feedback signs of autoregulatory gene networks

Michael Q. Zhang, H. Qian, Chen Jia, 2018, 1803.01123.

Thermodynamics of stoichiometric biochemical networks in living systems far from equilibrium.

H. Qian, D. Beard, 2005, Biophysical chemistry.

Gibbsian Statistical Ensemble Theory as an Emergent Limit Law in Probability

Hong Qian, Yu-Chen Cheng, H. Qian, 2018 .

One‐Dimensional Birth‐Death Process and Delbrück‐Gillespie Theory of Mesoscopic Nonlinear Chemical Reactions

H. Qian, Hao Ge, Yunxin Zhang, 2012, 1207.4214.

Nonlinear stochastic dynamics of mesoscopic homogeneous biochemical reaction systems—an analytical theory

H. Qian, 2011 .

Single particle tracking. Analysis of diffusion and flow in two-dimensional systems.

H. Qian, E. Elson, M. Sheetz, 1991, Biophysical journal.

Multiscale Modeling of Cardiac Cellular Energetics

L. Atlas, H. Chizeck, H. Qian, 2005, Annals of the New York Academy of Sciences.

Fractional Brownian Motion and Fractional Gaussian Noise

Hong Qian, H. Qian, 2003 .

On detailed balance and reversibility of semi-Markov processes and single-molecule enzyme kinetics

Hong Qian, Hongyun Wang, H. Qian, 2007 .

The mathematical theory of molecular motor movement and chemomechanical energy transduction

Hong Qian, H. Qian, 2000, cond-mat/0106302.

A perturbation analysis of rate theory of self-regulating genes and signaling networks.

H. Qian, Pei-Zhe Shi, 2011, The Journal of chemical physics.

Grand canonical diffusion-influenced reactions: A stochastic theory with applications to multiscale reaction-diffusion simulations.

H. Qian, F. Noé, Mauricio J. del Razo, 2018, The Journal of chemical physics.

A Discrete Stochastic Formulation for Reversible Bimolecular Reactions via Diffusion Encounter

H. Qian, M. D. Razo, 2015, 1511.08798.

Cooperativity in cellular biochemical processes: noise-enhanced sensitivity, fluctuating enzyme, bistability with nonlinear feedback, and other mechanisms for sigmoidal responses.

H. Qian, 2012, Annual review of biophysics.

Stochastic theory of nonequilibrium steady states. Part II: Applications in chemical biophysics

H. Qian, M. Qian, Hao Ge, 2012 .

Mesoscopic biochemical basis of isogenetic inheritance and canalization: stochasticity, nonlinearity, and emergent landscape.

H. Qian, Hao Ge, 2012, Molecular & cellular biomechanics : MCB.

Stoichiometric network theory for nonequilibrium biochemical systems.

H. Qian, S. Liang, D. Beard, 2003, European journal of biochemistry.

Relationship between Thermodynamic Driving Force and One-Way Fluxes in Reversible Processes

H. Qian, D. Beard, 2006, PloS one.

Entropy production in mesoscopic stochastic thermodynamics: nonequilibrium kinetic cycles driven by chemical potentials, temperatures, and mechanical forces

D. Bedeaux, H. Qian, S. Kjelstrup, 2016, Journal of physics. Condensed matter : an Institute of Physics journal.

Energy balance for analysis of complex metabolic networks.

H. Qian, S. Liang, D. Beard, 2002, Biophysical journal.

Cycle kinetics, steady state thermodynamics and motors—a paradigm for living matter physics

H. Qian, 2005, Journal of physics. Condensed matter : an Institute of Physics journal.

Thermodynamic-based computational profiling of cellular regulatory control in hepatocyte metabolism.

H. Qian, D. Beard, 2005, American journal of physiology. Endocrinology and metabolism.

Mathematical Formalism of Nonequilibrium Thermodynamics for Nonlinear Chemical Reaction Systems with General Rate Law

H. Qian, Hao Ge, 2016, 1604.07115.

Small Open Chemical Systems Theory and Its Implications to Darwinian Evolutionary Dynamics, Complex Self-Organization and Beyond

H. Qian, 2012, 1203.3874.

A class of flow bifurcation models with lognormal distribution and fractal dispersion.

H. Qian, J. Bassingthwaighte, James B. Bassingthwaighte, 2000, Journal of theoretical biology.

A Quasistationary Analysis of a Stochastic Chemical Reaction: Keizer’s Paradox

H. Qian, Melissa Vellela, 2007, Bulletin of mathematical biology.

Analysis of confocal laser-microscope optics for 3-D fluorescence correlation spectroscopy.

H. Qian, E. Elson, Elliot L. Elson, 1991, Applied optics.

Duality Symmetry, Two Entropy Functions, and an Eigenvalue Problem in Gibbs' Theory

H. Qian, Jeffrey Commons, Ying-Jen Yang, 2021, 2108.08948.

An Information Theoretical Analysis of Kinase Activated Phosphorylation Dephosphorylation Cycle

Sumit Roy, H. Qian, S. Roy, 2011, IEEE Transactions on NanoBioscience.

Mesoscopic nonequilibrium thermodynamics of single macromolecules and dynamic entropy-energy compensation.

H. Qian, 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

Stochastic phenotype transition of a single cell in an intermediate region of gene state switching.

Hong Qian, Hao Ge, X. Xie, 2013, Physical review letters.

Unified formalism for entropy production and fluctuation relations.

H. Qian, Ying-Jen Yang, 2019, Physical review. E.

Open-system nonequilibrium steady state: statistical thermodynamics, fluctuations, and chemical oscillations.

Hong Qian, H. Qian, 2006, The journal of physical chemistry. B.

Entropy demystified the "thermo"-dynamics of stochastically fluctuating systems.

H. Qian, 2009, Methods in enzymology.

Physical origins of entropy production, free energy dissipation, and their mathematical representations.

Hong Qian, Hao Ge, H. Qian, 2009, Physical review. E, Statistical, nonlinear, and soft matter physics.

Grand canonical Markov model: a stochastic theory for open nonequilibrium biochemical networks.

Hong Qian, William J. Heuett, H. Qian, 2006, The Journal of chemical physics.

Ultrasensitive dual phosphorylation dephosphorylation cycle kinetics exhibits canonical competition behavior.

H. Qian, Qingdao Huang, 2009, Chaos.

Temporal cooperativity and sensitivity amplification in biological signal transduction.

Hong Qian, Jonathan A. Cooper, H. Qian, 2008, Biochemistry.

On the Poincaré–Hill cycle map of rotational random walk: locating the stochastic limit cycle in a reversible Schnakenberg model

H. Qian, Melissa Vellela, 2010, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences.

Synchronized dynamics and non-equilibrium steady states in a stochastic yeast cell-cycle network.

Hong Qian, Hao Ge, H. Qian, 2009, Mathematical biosciences.

Stochastic theory of nonequilibrium steady states and its applications. Part I

Hong Qian, H. Qian, M. Qian, 2012 .

Competition between DNA Methylation, Nucleotide Synthesis, and Antioxidation in Cancer versus Normal Tissues.

Hong Qian, Sha Cao, Xiwen Zhu, 2017, Cancer research.

Structure for energy cycle: a unique status of the second law of thermodynamics for living systems

H. Qian, Hao Ge, Shunong Bai, 2018, Science China Life Sciences.

Continuous time random walks in closed and open single-molecule systems with microscopic reversibility

Hong Qian, Hongyun Wang, H. Qian, 2006 .

Emergence and Breaking of Duality Symmetry in Thermodynamic Behavior: Repeated Measurements and Macroscopic Limit

H. Qian, Zhiyue Lu, 2020 .

Stochastic bistability and bifurcation in a mesoscopic signaling system with autocatalytic kinase.

Hong Qian, H. Qian, Lisa M. Bishop, 2010, Biophysical journal.

Metabolic futile cycles and their functions: a systems analysis of energy and control.

H. Qian, D. Beard, H Qian, 2005, Systems biology.

Asymptotic Limit of a Singularly Perturbed Stationary Diffusion Equation: The Case of a Limit Cycle

H. Qian, Hao Ge, 2010 .

Non-equilibrium phase transition in mesoscopic biochemical systems: from stochastic to nonlinear dynamics and beyond

Hong Qian, Hao Ge, H. Qian, 2011, Journal of The Royal Society Interface.

Phosphorylation energy hypothesis: open chemical systems and their biological functions.

Hong Qian, H. Qian, 2007, Annual review of physical chemistry.

A model for the intrinsic limit of cancer therapy: Duality of treatment-induced cell death and treatment-induced stemness

Sui Huang, H. Qian, J. Zhou, 2021, bioRxiv.

Time-dependent saddle-node bifurcation: Breaking time and the point of no return in a non-autonomous model of critical transitions.

Felix X.-F. Ye, Sui Huang, H. Qian, 2016, Physica A: Statistical Mechanics and its Applications.

Asymptotic Behavior of a Sequence of Conditional Probability Distributions and the Canonical Ensemble

H. Qian, Yu-Chen Cheng, Yizhe Zhu, 2019, Annales Henri Poincaré.

On the degree properties of generalized random graphs

Yi Y. Shi, H. Qian, 2009 .

Entropy Productions and Their Mathematical Representations: Clausius' vs. Kelvin's Views of the Second Law and Irreversibility

H. Qian, Yue Wang, 2018 .

Fluorescence Correlation Spectroscopy and Nonlinear Stochastic Reaction − Di ff usion

H. Qian, W. Pan, G. Lin, 2014 .

Motor protein with nonequilibrium potential: Its thermodynamics and efficiency.

H. Qian, 2004, Physical review. E, Statistical, nonlinear, and soft matter physics.

Fluctuating enzyme and its biological functions: positive cooperativity without multiple states.

H. Qian, Pei-Zhe Shi, 2009, The journal of physical chemistry. B.

THE BROWNIAN RATCHET REVISITED: DIFFUSION FORMALISM, POLYMER-BARRIER ATTRACTIONS, AND MULTIPLE FILAMENTOUS BUNDLE GROWTH

H. Qian, C. Cole, 2011 .

Thermodynamic limit of a nonequilibrium steady state: Maxwell-type construction for a bistable biochemical system.

Hong Qian, Hao Ge, H. Qian, 2009, Physical review letters.

Analytical Mechanics in Stochastic Dynamics: Most Probable Path, Large-Deviation Rate Function and Hamilton-Jacobi Equation

H. Qian, Hao Ge, 2012, 1205.6052.

Interpretation of fluorescence correlation spectroscopy and photobleaching recovery in terms of molecular interactions.

H. Qian, E. Elson, 1989, Methods in cell biology.

Stochastic Population Kinetics and Its Underlying Mathematicothermodynamics

H. Qian, 2019, The Dynamics of Biological Systems.

Quantitative Model for Binary Measurements of Protein-Protein Interactions

Hong Qian, Yi Y. Shi, Gerald A. Miller, 2007, J. Comput. Biol..

Heat Dissipation and Nonequilibrium Thermodynamics of Quasi-Steady States and Open Driven Steady State

H. Qian, Hao Ge, 2011 .

Entropy production and excess entropy in a nonequilibrium steady-state of single macromolecules.

H. Qian, 2002, Physical review. E, Statistical, nonlinear, and soft matter physics.

Statistical Thermodynamics and Data Infinitum: Conjugate Variables as Forces, and their Statistical Variations

H. Qian, Ying-Jen Yang, 2022, 2205.09321.

Nonequilibrium thermodynamic formalism of nonlinear chemical reaction systems with Waage–Guldberg’s law of mass action

H. Qian, Hao Ge, 2016, 1601.03158.

Cyclic conformational modification of an enzyme: serial engagement, energy relay, hysteretic enzyme, and Fischer's hypothesis.

H. Qian, 2010, The journal of physical chemistry. B.

A stochastic analysis of a Brownian ratchet model for actin-based motility.

H. Qian, 2001, Mechanics & chemistry of biosystems : MCB.

Brownian Dynamics of Viscoelastic Materials

H. Qian, 1999 .

Continuous time random walks in closed and open single-molecule systems with microscopic reversibility

H. Qian, Hongyun Wang, 2006 .

Entropy‐enthalpy compensation: Perturbation and relaxation in thermodynamic systems

J. Hopfield, H. Qian, 1996 .

Mathematical formalism for isothermal linear irreversibility

H. Qian, 2000, Proceedings of the Royal Society of London. Series A: Mathematical, Physical and Engineering Sciences.

Delayed Onset of Positive Feedback Activation of Rab5 by Rabex-5 and Rabaptin-5 in Endocytosis

H. Qian, Huaiping Zhu, Guangpu Li, 2010, PloS one.

2022 Correspondence from renormalized frequency to heat capacity caused by anharmonic oscillations in diatomic molecules

H. Qian, J. Zhang, Q. Liu, 2022 .

Both cellular ATP level and ATP hydrolysis free energy determine energetically the calcium oscillation in pancreatic $\beta$-cell.

H. Qian, Q. Ouyang, Fangting Li, 2018, 1811.11341.

Emergence and Breaking of Duality Symmetry in Generalized Fundamental Thermodynamic Relations.

H. Qian, Zhiyue Lu, 2020, Physical review letters.

Relative entropy: free energy associated with equilibrium fluctuations and nonequilibrium deviations.

H. Qian, Hong Qian, 2000, Physical review. E, Statistical, nonlinear, and soft matter physics.

Stochastic dynamics, large deviation principle, and nonequilibrium thermodynamics.

Hong Qian, Liu Hong, H. Qian, 2020, Physical review. E.

Mathematical Representation of Clausius’ and Kelvin’s Statements of the Second Law and Irreversibility

H. Qian, Yue Wang, 2018, Journal of Statistical Physics.

Statistical Chemical Thermodynamics and Energetic Behavior of Counting: Gibbs' Theory Revisited.

H. Qian, 2022, Journal of chemical theory and computation.

Entropy production of Brownian macromolecules with inertia.

K. Kim, H. Qian, 2003, Physical review letters.

An Analysis of the Thermodynamics of Hydrophobic Solvation Based on Scaled Particle Theory

H. Qian, 2001, physics/0104085.

Mesoscopic nonequilibrium thermodynamics of single macromolecules and dynamic entropy-energy compensation.

H. Qian, 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

Kinematic Basis of Emergent Energetic Descriptions of General Stochastic Dynamics

H. Qian, 2017, 1704.01828.

Stochastic dynamics and non-equilibrium thermodynamics of a bistable chemical system: the Schlögl model revisited

Hong Qian, H. Qian, Melissa Vellela, 2009, Journal of The Royal Society Interface.

Mathematical Formalism of Nonequilibrium Thermodynamics for Nonlinear Chemical Reaction Systems with General Rate Law

H. Qian, Hao Ge, 2016, Journal of Statistical Physics.

Stochastic Free Energies, Conditional Probability and Legendre Transform for Ensemble Change

H. Qian, Mois'es Santill'an, 2011, 1112.3075.

Nonequilibrium potential function of chemically driven single macromolecules via Jarzynski-type Log-Mean-Exponential Heat.

H. Qian, 2005, The journal of physical chemistry. B.

Statistical Thermodynamics of General Minimal Diffusion Processes: Constuction, Invariant Density, Reversibility and Entropy Production

H. Qian, M. Qian, Xiang Tang, 2002, math-ph/0201001.

The Thermodynamic Structure Underlying a General Dynamics -- Stochastic Motion and Its Zero-Noise Deterministic Limit

H. Qian, 2017 .

Thermodynamic and kinetic analysis of sensitivity amplification in biological signal transduction.

H. Qian, 2002, Biophysical chemistry.

Structure for energy cycle: a unique status of the second law of thermodynamics for living systems

H. Qian, Hao Ge, Shunong Bai, 2018, Science China Life Sciences.

Chemical Biophysics: Quantitative Analysis of Cellular Systems

Hong Qian, Daniel A. Beard, H. Qian, 2008 .

Kinetic Timing: A Novel Mechanism That Improves the Accuracy of GTPase Timers in Endosome Fusion and Other Biological Processes

Hong Qian, Guangpu Li, H. Qian, 2002, Traffic.

On two-dimensional fractional Brownian motion and fractional Brownian random field.

Hong Qian, James B Bassingthwaighte, Gary M Raymond, 1998, Journal of physics A: Mathematical and general.

Nonlinear Stochastic Dynamics of Complex Systems, III: Nonequilibrium Thermodynamics of Self-Replication Kinetics

David B. Saakian, Hong Qian, H. Qian, 2016, IEEE Transactions on Molecular, Biological and Multi-Scale Communications.

Dissipation, generalized free energy, and a self-consistent nonequilibrium thermodynamics of chemically driven open subsystems.

Hong Qian, Hao Ge, H. Qian, 2011, Physical review. E, Statistical, nonlinear, and soft matter physics.

Combining Flux and Energy Balance Analysis to Model Large-scale Biochemical Networks

Hong Qian, William J. Heuett, H. Qian, 2006, J. Bioinform. Comput. Biol..

Constraint‐based modeling of metabolomic systems

Hong Qian, Daniel A. Beard, H. Qian, 2005 .

The statistical foundation of entropy in extended irreversible thermodynamics

H. Qian, L. Hong, 2020, Journal of Physics A: Mathematical and Theoretical.

Single-particle tracking: Brownian dynamics of viscoelastic materials.

H. Qian, H Qian, Hong Qian, 2000, Biophysical journal.

Universal relation between thermodynamic driving force and one-way fluxes in a nonequilibrium chemical reaction with complex mechanism

H. Qian, D. Beard, Hao Ge, 2019, Physical Review Research.

Generalized Haldane equation and fluctuation theorem in the steady-state cycle kinetics of single enzymes.

Hong Qian, X. Xie, H. Qian, 2005, Physical review. E, Statistical, nonlinear, and soft matter physics.

Fluorescence correlation spectroscopy with high-order and dual-color correlation to probe nonequilibrium steady states.

Hong Qian, Elliot L Elson, H. Qian, 2004, Proceedings of the National Academy of Sciences of the United States of America.

Entropy-enthalpy compensation : Conformational fluctuation and induced-fit

H. Qian, 1998 .

Remarks on discrete and continuous large-scale models of DNA dynamics.

H. Qian, I. Klapper, H Qian, 1998, Biophysical journal.

Statistics and Related Topics in Single-Molecule Biophysics.

Hong Qian, S C Kou, S. Kou, 2014, Annual review of statistics and its application.

Sensitivity and specificity amplification in signal transduction

Hong Qian, Guangpu Li, H. Qian, 2003, Cell Biochemistry and Biophysics.

The Chemical Master Equation Approach to Nonequilibrium Steady-State of Open Biochemical Systems: Linear Single-Molecule Enzyme Kinetics and Nonlinear Biochemical Reaction Networks

Hong Qian, H. Qian, Lisa M. Bishop, 2010, International journal of molecular sciences.

Emergent Lévy behavior in single-cell stochastic gene expression.

Michael Q. Zhang, Hong Qian, Chen Jia, 2017, Physical review. E.

Circular stochastic fluctuations in SIS epidemics with heterogeneous contacts among sub-populations.

H. Qian, M. Qian, Jia-Zeng Wang, 2011, Theoretical population biology.

Irreversible Stochastic Processes, Coupled Diffusions and Systems Biochemistry

H. Qian, Pei-Zhe Shi, 2010 .

A model for positive feedback control of the transformation of fibroblasts to myofibroblasts.

H. Qian, E. Elson, T. Wakatsuki, 2019, Progress in biophysics and molecular biology.

Stochastic fractal behavior in concentration fluctuation and fluorescence correlation spectroscopy.

H. Qian, J. Bassingthwaighte, G. Raymond, 1999, Biophysical chemistry.

A Stochastic Model of DNA Fragments Rejoining

Hong Qian, Francis A. Cucinotta, H. Qian, 2012, PloS one.

Stochastic Modeling of DNA Fragments Rejoining

H. Qian, Ya Wang, Yongfeng Li, 2012 .

A simple method of parameter space determination for diffusion-driven instability with three species

James D. Murray, Hong Qian, J. Murray, 2001, Appl. Math. Lett..

A mechanism for SRC kinase-dependent signaling by noncatalytic receptors.

Jonathan A. Cooper, H. Qian, 2008, Biochemistry.

Free-energy distribution of binary protein-protein binding suggests cross-species interactome differences.

Hong Qian, Yi Y. Shi, Karol Bomsztyk, 2006, Proceedings of the National Academy of Sciences of the United States of America.

Relatively slow stochastic gene-state switching in the presence of positive feedback significantly broadens the region of bimodality through stabilizing the uninduced phenotypic state

X. Sunney Xie, Pingping Wu, Hao Ge, 2018, PLoS Comput. Biol..

Nonlinear biochemical signal processing via noise propagation.

Hong Qian, Herbert M Sauro, K. Kim, 2013, The Journal of chemical physics.

Stochastic bifurcation, slow fluctuations, and bistability as an origin of biochemical complexity.

Hong Qian, Pei-Zhe Shi, Jianhua Xing, 2009, Physical chemistry chemical physics : PCCP.

A framework towards understanding mesoscopic phenomena: Emergent unpredictability, symmetry breaking and dynamics across scales

Y. Tu, P. Ao, H. Qian, 2013, 1310.5585.

A Theory of Mesoscopic Phenomena: Time Scales, Emergent Unpredictability, Symmetry Breaking and Dynamics Across Different Levels

Ping Ao, Hong Qian, Yuhai Tu, 2013 .

Stochastic physics, complex systems and biology

Hong Qian, H. Qian, 2012, Quantitative Biology.

Chemical Fluxes in Cellular Steady States Measured by Fluorescence Correlation Spectroscopy

H. Qian, E. Elson, 2010 .

Dynamic Looping of a Free-Draining Polymer

Hong Qian, Panos Stinis, Felix X.-F. Ye, 2017, SIAM J. Appl. Math..

Quantitative study of polymer conformation and dynamics by single-particle tracking.

H. Qian, E. Elson, 1999, Biophysical journal.

Nonequilibrium thermodynamics and nonlinear kinetics in a cellular signaling switch.

Hong Qian, Timothy C. Reluga, Timothy C Reluga, 2005, Physical review letters.

Nonequilibrium Population Dynamics of Phenotype Conversion of Cancer Cells

Hong Qian, Angela Oliveira Pisco, Joseph Xu Zhou, 2014, PloS one.

Processes on the emergent landscapes of biochemical reaction networks and heterogeneous cell population dynamics: differentiation in living matters

Hong Qian, Fangting Li, Sui Huang, 2017, Journal of The Royal Society Interface.

Fitness and entropy production in a cell population dynamics with epigenetic phenotype switching

Hong Qian, H. Qian, 2013, Quantitative Biology.

Open-system thermodynamic analysis of DNA polymerase fidelity

Hong Qian, Field Cady, H. Qian, 2009, Physical biology.

Nanometre-level analysis demonstrates that lipid flow does not drive membrane glycoprotein movements

Hong Qian, Michael P. Sheetz, Elliot L. Elson, 1989, Nature.

ObituaryBruno H. Zimm (1920–2005)

H. Qian, E. Elson, J. M. Schurr, 2006 .

Simulation study on the translocation of a partially charged polymer through a nanopore.

H. Qian, Li-Zhen Sun, Meng‐Bo Luo, 2012, The Journal of chemical physics.

Studies on the structure of actin gels using time correlation spectroscopy of fluorescent beads.

H. Qian, E. Elson, Carl Frieden, 1992, Biophysical journal.

Information and entropic force: physical description of biological cells, chemical reaction kinetics, and information theory

Hong Qian, H. Qian, 2017 .

Viscoelasticity of living materials: mechanics and chemistry of muscle as an active macromolecular system.

H. Qian, 2008, Molecular & cellular biomechanics : MCB.

A Stochastic Analysis of a Brownian Ratchet Model for Actin-Based Motility and Integrate-and-Firing Neurons

H. Qian, 2001, cond-mat/0106409.

Equations for stochastic macromolecular mechanics of single proteins: Equilibrium fluctuations, transient kinetics, and nonequilibrium steady-state

H. Qian, 2000, physics/0007017.

Strain-Dependent Fluorescence Correlation Spectroscopy: Proposing a New Measurement for Conformational Fluctuations of Biological Macromolecules

H. Qian, E. Elson, 2001 .

A mathematical analysis for the Brownian dynamics of a DNA tether

H. Qian, H Qian, 2000, Journal of mathematical biology.

Stochastic ensembles, conformationally adaptive teamwork, and enzymatic detoxification.

H. Qian, W. Atkins, 2011, Biochemistry.

Amplifying signal transduction specificity without multiple phosphorylation.

H. Qian, 2003, Biophysical journal.

Stochastic dynamics: Markov chains and random transformations

Hong Qian, Felix X.-F. Ye, H. Qian, 2016 .

Linear analysis near a steady-state of biochemical networks: Control analysis, correlation metrics and circuit theory

Hong Qian, Daniel A. Beard, William J. Heuett, 2008, BMC Systems Biology.

Cooperativity and specificity in enzyme kinetics: a single-molecule time-based perspective.

H. Qian, 2008, Biophysical journal.

A model for the spread of infectious diseases compatible with case data

Qian Wang, N. Huang, H. Qian, 2021, Proceedings of the Royal Society A.

On the existence of potential landscape in the evolution of complex systems pdf

P. Ao, C. Kwon, H. Qian, 2007, Complex..

Stochastic thermodynamics across scales: Emergent inter-attractoral discrete Markov jump process and its underlying continuous diffusion

Hong Qian, Moises Santillan, H. Qian, 2011, 1103.3306.

This paper is published as part of a PCCP Themed Issue on: Physical Chemistry of Biomolecular Motors and Machines

Jianhua Xing, Hong Qian, Pei-Zhe Shi, 2009 .

Stochastic Limit-Cycle Oscillations of a Nonlinear System Under Random Perturbations

H. Qian, Yu-Chen Cheng, 2020, Journal of Statistical Physics.

Ab initio prediction of thermodynamically feasible reaction directions from biochemical network stoichiometry.

Hong Qian, Feng Yang, Daniel A Beard, 2005, Metabolic engineering.

An annotated English translation of `Kinetics of stationary reactions' [M. I. Temkin, Dolk. Akad. Nauk SSSR. 152, 156 (1963)]

H. Qian, R. Fleming, D. Beard, 2010, 1001.2861.

Hydrogen exchange kinetics of proteins in denaturants: a generalized two-process model.

H. Qian, S. Chan, 1999, Journal of molecular biology.

Cell Population Growth Kinetics in the Presence of Stochastic Heterogeneity of Cell Phenotype

Sui Huang, H. Qian, H. Qian, 2023, bioRxiv.

Maximum Entropy Principle, Equal Probability a Priori and Gibbs Paradox

H. Qian, Hao Ge, 2011, 1105.4118.

Numerical simulations of piecewise deterministic Markov processes with an application to the stochastic Hodgkin-Huxley model.

Hong Qian, H. Qian, M. Qian, 2016, The Journal of chemical physics.

Fluctuation theorems for a molecular refrigerator.

Hong Qian, K. Kim, H. Qian, 2007, Physical review. E, Statistical, nonlinear, and soft matter physics.

Statistical Thermodynamics and Data ad Infinitum: Conjugate Variables as Forces, and their Statistical Variations

H. Qian, Ying-Jen Yang, 2022, 2205.09321.

A simple theory of motor protein kinetics and energetics. II.

H. Qian, 2000, Biophysical chemistry.

Bivectorial Nonequilibrium Thermodynamics: Cycle Affinity, Vorticity Potential, and Onsager’s Principle

H. Qian, Ying-Jen Yang, 2020, Journal of Statistical Physics.

Counting single cells and computing their heterogeneity: from phenotypic frequencies to mean value of a quantitative biomarker

Hong Qian, Yu-Chen Cheng, H. Qian, 2020, Quantitative Biology.

Ternary Representation of Stochastic Change and the Origin of Entropy and Its Fluctuations pdf

Hong Qian, Yu-Chen Cheng, Lowell F. Thompson, 2019, ArXiv.

Characterization of Metastatic Tumor Formation by the Colony Size Distribution

H. Qian, H. Withers, W. McBride, 2006, q-bio/0608024.

Oscillations and multiscale dynamics in a closed chemical reaction system: second law of thermodynamics and temporal complexity.

Hong Qian, Yingfei Yi, Yongfeng Li, 2008, The Journal of chemical physics.

Statistical Analysis of Random Motion and Energetic Behavior of Counting: Gibbs' Theory Revisited.

H. Qian, Erin Angelini, 2023, The journal of physical chemistry. B.

Thermodynamic Behavior of Statistical Event Counting in Time: Independent and Correlated Measurements

H. Qian, 2021, 2109.12806.

Actin Aggregations Mark the Sites of Neurite Initiation

H. Qian, Xiang Yu, Shu-xin Zhang, 2016, Neuroscience Bulletin.

Distribution of molecular aggregation by analysis of fluctuation moments.

H. Qian, E. Elson, E L Elson, 1990, Proceedings of the National Academy of Sciences of the United States of America.

On the analysis of high order moments of fluorescence fluctuations.

H. Qian, E. Elson, E L Elson, 1990, Biophysical journal.

Concentration fluctuations in a mesoscopic oscillating chemical reaction system

Hong Qian, Elliot L Elson, H. Qian, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Mesoscopic kinetic basis of macroscopic chemical thermodynamics: A mathematical theory.

Hong Qian, Hao Ge, H. Qian, 2016, Physical review. E.

Kramers' diffusion theory applied to gating kinetics of voltage-dependent ion channels.

F Bezanilla, H. Qian, F. Bezanilla, 1999, Biophysical journal.

Pumped biochemical reactions, nonequilibrium circulation, and stochastic resonance.

H. Qian, M. Qian, 2000, Physical review letters.

On the statistics of fluorescence correlation spectroscopy.

H. Qian, H Qian, 1990, Biophysical chemistry.

Thermodynamics of Markov processes with nonextensive entropy and free energy.

H. Qian, Liangrong Peng, L. Hong, 2010, Physical review. E.

Stochastic dynamics of electrical membrane with voltage-dependent ion channel fluctuations

Hong Qian, Min Qian, H. Qian, 2014, 1404.1548.

Powering a burnt bridges Brownian ratchet: a model for an extracellular motor driven by proteolysis of collagen.

H. Qian, E. Elson, S. Saffarian, 2006, Physical review. E, Statistical, nonlinear, and soft matter physics.

Single-molecule enzymology: stochastic Michaelis-Menten kinetics.

Hong Qian, Elliot L Elson, H. Qian, 2002, Biophysical chemistry.

Bivectorial Mesoscopic Nonequilibrium Thermodynamics: Landauer-Bennett-Hill Principle, Cycle Affinity and Vorticity Potential

H. Qian, Ying-Jen Yang, 2020, 2004.08677.

From discrete protein kinetics to continuous Brownian dynamics: A new perspective

H. Qian, 2001, Protein science : a publication of the Protein Society.

A quantitative analysis of single protein-ligand complex separation with the atomic force microscope.

H. Qian, H Qian, B E Shapiro, 1997, Biophysical chemistry.

Michaelis-Menten kinetics under non-isothermal conditions.

H. Qian, S. Kjelstrup, A. Lervik, 2015, Physical chemistry chemical physics : PCCP.

Chemical reaction kinetic perspective with mesoscopic nonequilibrium thermodynamics

Hong Qian, H. Qian, 2016, Complexity Science.

Analytic theory of stochastic oscillations in single-cell gene expression

Michael Q. Zhang, H. Qian, Chen Jia, 2019, 1909.09769.

Stoichiometric Foundation of Large-Scale Biochemical System Analysis

Hong Qian, James B. Bassingthwaighte, Daniel A. Beard, 2004 .

Graphical method for force analysis: Macromolecular mechanics with atomic force microscopy

H. Qian, B. Shapiro, 1999, Proteins.

A little engine that could: ATP-powered electrical battery and heater inside cells.

H. Qian, H. Autzen, 2012, Biophysical journal.

Hill’s small systems nanothermodynamics: a simple macromolecular partition problem with a statistical perspective

H. Qian, 2011, Journal of biological physics.

Representations and divergences in the space of probability measures and stochastic thermodynamics

Liu Hong, Hong Qian, Lowell F. Thompson, 2019, J. Comput. Appl. Math..

A thermodynamic theory of ecology: Helmholtz theorem for Lotka–Volterra equation, extended conservation law, and stochastic predator–prey dynamics

Yian Ma, H. Qian, 2014, Proceedings of the Royal Society A: Mathematical, Physical and Engineering Sciences.

Cell poking: quantitative analysis of indentation of thick viscoelastic layers.

G I Zahalak, G. Zahalak, H. Qian, 1989, Biophysical journal.

Reducing intrinsic biochemical noise in cells and its thermodynamic limit.

Hong Qian, H. Qian, 2006, Journal of molecular biology.

Vector Field Formalism and Analysis for a Class of Thermal Ratchets

Hong Qian, H. Qian, 1998 .

Linear analysis near a steady-state of biochemical networks: Control analysis, correlation metrics and circuit theory

William J. Heuett, H. Qian, D. Beard, 2008, BMC Systems Biology.

Potential of Entropic Force in Markov Systems with Nonequilibrium Steady State, Generalized Gibbs Function and Criticality

Hong Qian, Lowell F. Thompson, H. Qian, 2016, Entropy.

ATP hydrolysis kinetics and thermodynamics as determinants of calcium oscillation in pancreatic β cells

H. Qian, Q. Ouyang, Fangting Li, 2022, Physical Review Research.

Kinematic basis of emergent energetics of complex dynamics

H. Qian, Yu-Chen Cheng, Ying-Jen Yang, 2017, EPL (Europhysics Letters).

Stochastic dynamics Ⅱ: Finite random dynamical systems, linear representation, and entropy production

Hong Qian, Felix X.-F. Ye, H. Qian, 2018, Discrete & Continuous Dynamical Systems - B.

Nonequilibrium Stationary Process and Fluctuation-Dissipation Relations

Hong Qian, Ying-Jen Yang, H. Qian, 2021, 2106.13374.

Fluorescence correlation spectroscopy and nonlinear stochastic reaction-diffusion.

H. Qian, G. Lin, Mauricio J. del Razo, 2014, The journal of physical chemistry. B.

Grand canonical diffusion-influenced reactions: A stochastic theory with applications to multiscale reaction-diffusion simulations.

H. Qian, F. Noé, Mauricio J. del Razo, 2018, The Journal of chemical physics.

Terminal twist induced continuous writhe of a circular rod with intrinsic curvature.

H. Qian, J. White, 1998, Journal of biomolecular structure & dynamics.

Intermittent Synchronization in Finite-State Random Networks Under Markov Perturbations

H. Qian, Y. Yi, A. Berger, 2020, Communications in Mathematical Physics.

Synchronization in Discrete-Time, Discrete-State Random Dynamical Systems

Wen Huang, Hong Qian, Felix X.-F. Ye, 2019, SIAM J. Appl. Dyn. Syst..

Estimate exponential memory decay in Hidden Markov Model and its applications

Hong Qian, Felix X.-F. Ye, Yian Ma, 2017, 1710.06078.

Internal Energy, Fundamental Thermodynamic Relation, and Gibbs' Ensemble Theory as Laws of Statistical Counting

H. Qian, 2022, 2209.14337.

On the Posterior Distribution of a Random Process Conditioned on Empirical Frequencies of a Finite Path: the i.i.d and finite Markov chain case

Wenqing Hu, H. Qian, 2022, 2202.11780.

A Hamiltonian-Entropy Production Connection in the Skew-symmetric Part of a Stochastic Dynamics

Hong Qian, H. Qian, 2012, 1205.6552.

Amplification and detection of single-molecule conformational fluctuation through a protein interaction network with bimodal distributions.

Hong Qian, Jianhua Xing, Zhanghan Wu, 2009, The journal of physical chemistry. B.

A Theory of Stochastic Transition Between Cellular Phenotypes: Gene Regulation under Nonequilibrium Steady State

H. Qian, Hao Ge, S. Xie, 2013 .

Structure for energy cycle: a unique status of the second law of thermodynamics for living systems

H. Qian, Hao Ge, Shunong Bai, 2018, Science China Life Sciences.

Thermodynamics of the general diffusion process: Equilibrium supercurrent and nonequilibrium driven circulation with dissipation

H. Qian, 2015, The European Physical Journal Special Topics.

Linear analysis near a steady-state of biochemical networks: Control analysis, correlation metrics and circuit theory

William J. Heuett, H. Qian, D. Beard, 2008, BMC Systems Biology.

The Helmholtz Theorem for the Lotka-Volterra Equation, the Extended Conservation Relation, and Stochastic Predator-Prey Dynamics

Yian Ma, H. Qian, 2014 .

Nonequilibrium steady-state circulation and heat dissipation functional.

H. Qian, 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.

Computational Cellular Dynamics Based on the Chemical Master Equation: A Challenge for Understanding Complexity

Jie Liang, Hong Qian, H. Qian, 2010, Journal of Computer Science and Technology.

Exact Power Spectrum in a Minimal Hybrid Model of Stochastic Gene Expression Oscillations

Michael Q. Zhang, H. Qian, Chen Jia, 2019, SIAM J. Appl. Math..

Time-translational symmetry in statistical dynamics dictates Einstein relation, Green-Kubo formula, and their generalizations.

H. Qian, Ying-Jen Yang, 2023, Physical review. E.