DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Nonequilibrium physics in biology

Journal Article · · Reviews of Modern Physics
 [1];  [2];  [3]; ORCiD logo [4]
  1. Changchun Inst. of Applied Chemistry (China). State Key Lab. of Electroanalytical Chemistry; Stony Brook Univ., NY (United States). Dept. of Chemistry; UIUC
  2. Univ. of Geneva (Switzerland)
  3. Univ. of Illinois at Urbana-Champaign, IL (United States)
  4. State Univ. of New York, Stony Brook, NY (United States)

Life is characterized by a myriad of complex dynamic processes allowing organisms to grow, reproduce, and evolve. Physical approaches for describing systems out of thermodynamic equilibrium have been increasingly applied to living systems, which often exhibit phenomena not found in those traditionally studied in physics. Spectacular advances in experimentation during the last decade or two, for example, in microscopy, single-cell dynamics, in the reconstruction of subcellular and multicellular systems outside of living organisms, and in high throughput data acquisition, have yielded an unprecedented wealth of data on cell dynamics, genetic regulation, and organismal development. These data have motivated the development and refinement of concepts and tools to dissect the physical mechanisms underlying biological processes. Notably, landscape and flux theory as well as active hydrodynamic gel theory have proven useful in this endeavor. Together with concepts and tools developed in other areas of nonequilibrium physics, significant progress has been made in unraveling the principles underlying efficient energy transport in photosynthesis, cellular regulatory networks, cellular movements and organization, embryonic development and cancer, neural network dynamics, population dynamics and ecology, as well as aging, immune responses, and evolution. In this paper, recent advances in nonequilibrium physics are reviewd and their application to biological systems is surveyed. Many of these results are expected to be important cornerstones as the field continues to build our understanding of life.

Research Organization:
Univ. of Illinois at Urbana-Champaign, IL (United States)
Sponsoring Organization:
Deutsche Forschungsgemeinschaft (DFG); Deutsche Forschungsgemeinschaft (DFG), Bonn (Germany); Ministry of Science and Technology of the People's Republic of China (MOST); National Institutes of Health (NIH); National Natural Science Foundation of China (NSFC); National Science Foundation (NSF); US Department of the Navy, Office of Naval Research (ONR); USDOE Office of Science (SC), Biological and Environmental Research (BER); USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
Grant/Contract Number:
SC0018420; SC0019185
OSTI ID:
1595084
Journal Information:
Reviews of Modern Physics, Journal Name: Reviews of Modern Physics Journal Issue: 4 Vol. 91; ISSN 0034-6861; ISSN RMPHAT
Publisher:
American Physical Society (APS)Copyright Statement
Country of Publication:
United States
Language:
English

References (616)

Reconstitution of Pole-to-Pole Oscillations of Min Proteins in Microengineered Polydimethylsiloxane Compartments journal November 2012
Engineered genetic information processing circuits: Engineered genetic information processing circuits journal February 2013
Physics, Computation, and Why Biology Looks so Different journal July 1994
Evolutionary cycling in predator-prey interactions: population dynamics and the red queen journal September 1995
Mathematical Population Genetics book January 2004
The Fokker-Planck Equation book January 1996
Hydrostatic theory of liquid crystals journal January 1962
Global stability in two species interactions journal September 1976
Cycling in simple genetic systems journal January 1982
Global stability of two species systems journal January 1977
Global stability of predator-prey interactions journal January 1979
Phase transitions in an exactly soluble one-dimensional exclusion process journal July 1993
Genetic studies of diseases: Cancer systems biology: exploring cancer-associated genes on cellular networks journal April 2007
Acting on actin: the electric motility assay journal June 1998
Convergence of multilocus systems under weak epistasis or weak selection journal February 1999
Sewall Wright’s adaptive landscapes: 1932 vs. 1988 journal August 2008
Turbulence as a Problem in Non-equilibrium Statistical Mechanics journal December 2016
Interactions Between the Immune System and Cancer: A Brief Review of Non-spatial Mathematical Models journal March 2010
Mutation Rate Evolution in Replicator Dynamics journal September 2012
A general method for numerically simulating the stochastic time evolution of coupled chemical reactions journal December 1976
Differentiation of malignant to benign cells journal June 1971
On global stability of a predator-prey system journal May 1978
Opposite end assembly and disassembly of microtubules at steady state in vitro journal January 1978
New quantum oscillations in current driven small junctions journal April 1985
A Dynamic Model for Determining the Middle of Escherichia coli journal February 2002
Growth Velocities of Branched Actin Networks journal May 2003
Separation of Liquid Phases in Giant Vesicles of Ternary Mixtures of Phospholipids and Cholesterol journal November 2003
Impulses and Physiological States in Theoretical Models of Nerve Membrane journal July 1961
Cell motility driven by actin polymerization journal December 1996
Synchronous behavior of spontaneous oscillations of sarcomeres in skeletal myofibrils under isotonic conditions journal April 1996
A Model for Membrane Patchiness: Lateral Diffusion in the Presence of Barriers and Vesicle Traffic journal December 1999
Buyer search and price dispersion:a laboratory study journal October 2003
Head to tail polymerization of actin journal November 1976
Brownian motion in a field of force and the diffusion model of chemical reactions journal April 1940
Positional Cloning of the Mouse Circadian Clock Gene journal May 1997
Kin I Kinesins Are Microtubule-Destabilizing Enzymes journal January 1999
The Hallmarks of Cancer journal January 2000
Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli journal May 2003
Periodic Lamellipodial Contractions Correlate with Rearward Actin Waves journal February 2004
The fluctuating enzyme: a single molecule approach journal August 1999
Single-molecule enzymology: stochastic Michaelis–Menten kinetics journal December 2002
Reaction–diffusion waves of actin filament polymerization/depolymerization in Dictyostelium pseudopodium extension and cell locomotion journal April 2000
Microtubule dynamics: Treadmilling comes around again journal June 1997
Control of Development by Altered Localization of a Transcription Factor in B. subtilis journal November 1999
Dynamic Movement of the ParA-like Soj Protein of B. subtilis and Its Dual Role in Nucleoid Organization and Developmental Regulation journal November 1999
The Kinesin-Related Protein MCAK Is a Microtubule Depolymerase that Forms an ATP-Hydrolyzing Complex at Microtubule Ends journal February 2003
On the role of the filament length distribution in the mechanics of semiflexible networks journal May 2011
Steady quantum coherence in non-equilibrium environment journal September 2015
Potential landscape and flux field theory for turbulence and nonequilibrium fluid systems journal February 2018
Robustness and Coherence of a Three-Protein Circadian Oscillator: Landscape and Flux Perspectives journal December 2009
The Potential Landscape of Genetic Circuits Imposes the Arrow of Time in Stem Cell Differentiation journal July 2010
Reconstitution of Contractile Actomyosin Bundles journal June 2011
Spontaneous Contractility-Mediated Cortical Flow Generates Cell Migration in Three-Dimensional Environments journal September 2011
Landscape, Flux, Correlation, Resonance, Coherence, Stability, and Key Network Wirings of Stochastic Circadian Oscillation journal September 2011
Crowding of Molecular Motors Determines Microtubule Depolymerization journal November 2011
Dynamical Modeling of Three-Dimensional Genome Organization in Interphase Budding Yeast journal January 2012
Landscape and Global Stability of Nonadiabatic and Adiabatic Oscillations in a Gene Network journal March 2012
Excitable Actin Dynamics in Lamellipodial Protrusion and Retraction journal April 2012
Monitoring Actin Cortex Thickness in Live Cells journal August 2013
Coupled Reversible and Irreversible Bistable Switches Underlying TGFβ-induced Epithelial to Mesenchymal Transition journal August 2013
Furrow Constriction in Animal Cell Cytokinesis journal January 2014
Delayed Feedback Model of Axonal Length Sensing journal May 2015
A Combination of Actin Treadmilling and Cross-Linking Drives Contraction of Random Actomyosin Arrays journal November 2015
Determining Physical Properties of the Cell Cortex journal March 2016
Period Robustness and Entrainability of the Kai System to Changing Nucleotide Concentrations journal July 2017
Traveling waves in actin dynamics and cell motility journal February 2013
Understanding the Odd Science of Aging journal February 2005
Single-Molecule Microscopy Reveals Plasma Membrane Microdomains Created by Protein-Protein Networks that Exclude or Trap Signaling Molecules in T Cells journal June 2005
α-Catenin Is a Molecular Switch that Binds E-Cadherin-β-Catenin and Regulates Actin-Filament Assembly journal December 2005
Induction of Pluripotent Stem Cells from Mouse Embryonic and Adult Fibroblast Cultures by Defined Factors journal August 2006
Nanoclusters of GPI-Anchored Proteins Are Formed by Cortical Actin-Driven Activity journal December 2008
Kinesin-8 Motors Act Cooperatively to Mediate Length-Dependent Microtubule Depolymerization journal September 2009
Heterogeneity in Cancer: Cancer Stem Cells versus Clonal Evolution journal September 2009
A Minimal Midzone Protein Module Controls Formation and Length of Antiparallel Microtubule Overlaps journal August 2010
Cellular Decision Making and Biological Noise: From Microbes to Mammals journal March 2011
Hallmarks of Cancer: The Next Generation journal March 2011
Modeling the Cell Cycle: Why Do Certain Circuits Oscillate? journal March 2011
Cortical Dynein Controls Microtubule Dynamics to Generate Pulling Forces that Position Microtubule Asters journal February 2012
Diffusible Crosslinkers Generate Directed Forces in Microtubule Networks journal March 2015
Coexisting Liquid Phases Underlie Nucleolar Subcompartments journal June 2016
A Motor-Driven Mechanism for Cell-Length Sensing journal June 2012
Cellular noise and information transmission journal August 2014
A framework towards understanding mesoscopic phenomena: Emergent unpredictability, symmetry breaking and dynamics across scales journal November 2016
Centrosome Size Sets Mitotic Spindle Length in Caenorhabditis elegans Embryos journal February 2010
Architecture and Connectivity Govern Actin Network Contractility journal March 2016
The Actin Cortex: A Bridge between Cell Shape and Function journal September 2016
The trifecta of aging in Caenorhabditis elegans journal October 2006
Cancer stem cells: a model in the making journal February 2009
Vascular remodelling of an arterio-venous blood vessel network during solid tumour growth journal August 2009
Quantifying the potential and flux landscapes of multi-locus evolution journal June 2017
Cancer as robust intrinsic state of endogenous molecular-cellular network shaped by evolution journal January 2008
Synthetic microbial communities journal April 2014
On the evolution of bacterial multicellularity journal April 2015
Theoretical Neuroscience Rising journal November 2008
Landscape and flux theory of non-equilibrium open economy journal September 2017
Actomyosin contraction, aggregation and traveling waves in a treadmilling actin array journal April 2016
The zeroth law of thermodynamics and volume-preserving conservative system in equilibrium with stochastic damping journal January 2014
Laws in Darwinian evolutionary theory journal June 2005
From the mathematical kinetic, and stochastic game theory to modelling mutations, onset, progression and immune competition of cancer cells journal December 2008
Cancer attractors: A systems view of tumors from a gene network dynamics and developmental perspective journal September 2009
Vesicle coats: structure, function, and general principles of assembly journal June 2013
Engineering microbial consortia: a new frontier in synthetic biology journal September 2008
From fitness landscapes to seascapes: non-equilibrium dynamics of selection and adaptation journal March 2009
Stochastic formulation of ecological models and their applications journal June 2012
Modeling Brain Function book January 1989
Quantum Optics book January 2012
Turbulence: The Legacy of A. N. Kolmogorov book January 1996
A refinement of previous hypotheses concerning the local structure of turbulence in a viscous incompressible fluid at high Reynolds number journal May 1962
Exploring the Underlying Mechanisms of the Xenopus laevis Embryonic Cell Cycle journal January 2018
Vibronic Resonances Facilitate Excited-State Coherence in Light-Harvesting Proteins at Room Temperature journal October 2015
Vibrational Energy Flow and Chemical Reactions journal April 2004
Electron Transport in Single Molecules: From Benzene to Graphene journal March 2009
Water Dynamics:  Fluctuation, Relaxation, and Chemical Reactions in Hydrogen Bond Network Rearrangement journal September 1999
Coherent Multidimensional Optical Spectroscopy of Excitons in Molecular Aggregates; Quasiparticle versus Supermolecule Perspectives journal June 2009
Adiabaticity of electron transfer at an electrode journal February 1987
Classical and quantum pictures of reaction dynamics in condensed matter: resonances, dephasing, and all that journal November 1988
When Does the Michaelis−Menten Equation Hold for Fluctuating Enzymes? journal October 2006
Vibronic Enhancement of Exciton Sizes and Energy Transport in Photosynthetic Complexes journal February 2011
Adiabatic and Non-Adiabatic Non-Equilibrium Stochastic Dynamics of Single Regulating Genes journal February 2011
Michaelis−Menten Equation and Detailed Balance in Enzymatic Networks journal May 2011
Ultrafast Dynamics of Nonequilibrium Electron Transfer in Photoinduced Redox Cycle: Solvent Mediation and Conformation Flexibility journal July 2012
Origin of Long-Lived Coherences in Light-Harvesting Complexes journal June 2012
Landscape Framework and Global Stability for Stochastic Reaction Diffusion and General Spatially Extended Systems with Intrinsic Fluctuations journal July 2013
Stochastic Path Approach to Compute Atomically Detailed Trajectories:  Application to the Folding of C Peptide journal February 1999
Dominant Kinetic Paths of Complex Systems: Gene Networks journal May 2010
Simultaneous Measurements of Electronic Conduction and Raman Response in Molecular Junctions journal March 2008
Nonequilibrium Measurements of Free Energy Differences for Microscopically Reversible Markovian Systems journal January 1998
Homeostasis and Differentiation in Random Genetic Control Networks journal October 1969
Selection and Covariance journal August 1970
The Logic of Animal Conflict journal November 1973
Flagellar rotation and the mechanism of bacterial motility journal May 1974
Hypothesis for origin of planktonic patchiness journal February 1976
Persistent, directional motility of cells and cytoplasmic fragments in the absence of microtubules journal July 1984
Dynamic instability of microtubule growth journal November 1984
Red Queen hypothesis supported by parasitism in sexual and clonal fish journal April 1990
A synthetic oscillatory network of transcriptional regulators journal January 2000
Construction of a genetic toggle switch in Escherichia coli journal January 2000
A mutant of the motor protein kinesin that moves in both directions on microtubules journal August 2000
Nanomechanical oscillations in a single-C60 transistor journal September 2000
Force and focal adhesion assembly: a close relationship studied using elastic micropatterned substrates journal April 2001
Direct, high-resolution measurement of furrow stiffening during division of adherent cells journal May 2001
A C. elegans mutant that lives twice as long as wild type journal December 1993
Self-organization of microtubules and motors journal September 1997
Enhanced flow in carbon nanotubes journal November 2005
A synthetic Escherichia coli predator–prey ecosystem journal January 2008
Social interaction in synthetic and natural microbial communities journal January 2011
Bacterial cheating drives the population dynamics of cooperative antibiotic resistance plasmids journal January 2013
Local dispersal promotes biodiversity in a real-life game of rock–paper–scissors journal July 2002
Imaging coexisting fluid domains in biomembrane models coupling curvature and line tension journal October 2003
Dynamic control of positional information in the early Drosophila embryo journal July 2004
A synthetic gene–metabolic oscillator journal May 2005
Crossover from ‘mesoscopic’ to ‘universal’ phase for electron transmission in quantum dots journal July 2005
Verification of the Crooks fluctuation theorem and recovery of RNA folding free energies journal September 2005
Experimental observation of the quantum Hall effect and Berry's phase in graphene journal November 2005
An excitable gene regulatory circuit induces transient cellular differentiation journal March 2006
Nanog safeguards pluripotency and mediates germline development journal December 2007
Rapid leukocyte migration by integrin-independent flowing and squeezing journal May 2008
A fast, robust and tunable synthetic gene oscillator journal October 2008
Snowdrift game dynamics and facultative cheating in yeast journal April 2009
Changes of mind in decision-making journal August 2009
A synchronized quorum of genetic clocks journal January 2010
The genetics of ageing journal March 2010
Polar patterns of driven filaments journal September 2010
Anisotropies in cortical tension reveal the physical basis of polarizing cortical flows journal September 2010
Polar actomyosin contractility destabilizes the position of the cytokinetic furrow journal August 2011
A sensing array of radically coupled genetic ‘biopixels’ journal December 2011
Spontaneous motion in hierarchically assembled active matter journal November 2012
Dendritic-cell vaccines on the move journal March 2015
Reconciling taxon senescence with the Red Queen’s hypothesis journal November 2017
Navigating cancer network attractors for tumor-specific therapy journal September 2012
Yeast kinesin-8 depolymerizes microtubules in a length-dependent manner journal August 2006
Plasma membrane nanoswitches generate high-fidelity Ras signal transduction journal July 2007
A core Klf circuitry regulates self-renewal of embryonic stem cells journal February 2008
Phosphatidylserine is polarized and required for proper Cdc42 localization and for development of cell polarity journal October 2011
The Cdk1–APC/C cell cycle oscillator circuit functions as a time-delayed, ultrasensitive switch journal April 2013
XMAP215 activity sets spindle length by controlling the total mass of spindle microtubules journal August 2013
Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited journal December 2005
Still and rotating myosin clusters determine cytokinetic ring constriction journal July 2016
Disordered actomyosin networks are sufficient to produce cooperative and telescopic contractility journal August 2016
Boundaries steer the contraction of active gels journal October 2016
Non-classicality of the molecular vibrations assisting exciton energy transfer at room temperature journal January 2014
Cancer immunoediting: from immunosurveillance to tumor escape journal November 2002
The energy–speed–accuracy trade-off in sensory adaptation journal March 2012
The role of non-equilibrium vibrational structures in electronic coherence and recoherence in pigment–protein complexes journal January 2013
Quantum coherence in photosynthesis for efficient solar-energy conversion journal July 2014
Ecological collapse and the emergence of travelling waves at the onset of shear turbulence journal November 2015
The physics of cancer: the role of physical interactions and mechanical forces in metastasis journal June 2011
Intra-tumour heterogeneity: a looking glass for cancer? journal April 2012
Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation journal June 2003
Cell surface mechanics and the control of cell shape, tissue patterns and morphogenesis journal August 2007
Blebs lead the way: how to migrate without lamellipodia journal July 2008
Design principles of biochemical oscillators journal October 2008
Chemosensory pathways, motility and development in Myxococcus xanthus journal November 2007
Bacterial solutions to multicellularity: a tale of biofilms, filaments and fruiting bodies journal January 2014
A brief history of synthetic biology journal April 2014
Min protein patterns emerge from rapid rebinding and membrane interaction of MinE journal April 2011
Spontaneous buckling of contractile poroelastic actomyosin sheets journal June 2018
Cell fate potentials and switching kinetics uncovered in a classic bistable genetic switch journal July 2018
Designing microbial consortia with defined social interactions journal June 2018
A new mechanism of stem cell differentiation through slow binding/unbinding of regulators to genes journal August 2012
Effects of Collective Histone State Dynamics on Epigenetic Landscape and Kinetics of Cell Reprogramming journal November 2015
A physical mechanism of cancer heterogeneity journal February 2016
C2-domain mediated nano-cluster formation increases calcium signaling efficiency journal November 2016
Origin of long-lived quantum coherence and excitation dynamics in pigment-protein complexes journal November 2016
Instabilities and oscillations in isotropic active gels journal January 2011
Modeling crawling cell movement on soft engineered substrates journal January 2014
Non-equilibrium transition state rate theory journal January 2014
Vibrational and coherence dynamics of molecules journal January 2015
Multiple coupled landscapes and non-adiabatic dynamics with applications to self-activating genes journal January 2015
Bidirectional cooperative motion of myosin-II motors on actin tracks with randomly alternating polarities journal January 2009
Soft active aggregates: mechanics, dynamics and self-assembly of liquid-like intracellular protein bodies journal January 2011
Spontaneous segregation of self-propelled particles with different motilities journal January 2012
Fully developed turbulence and statistical mechanics journal January 1978
Single-molecule chemistry journal December 2002
Exciton–Phonon Interactions in Molecular Crystals journal February 1970
Random Matrix Theory and the Master Equation for Finite Systems journal December 1972
Lessons from hydrodynamic turbulence journal April 2006
Understanding stochastic simulations of the smallest genetic networks journal June 2007
On collisional energy transfer in recombination and dissociation reactions: A Wiener–Hopf problem and the effect of a near elastic peak journal December 2008
Kinetic paths, time scale, and underlying landscapes: A path integral framework to study global natures of nonequilibrium systems and networks journal September 2010
Theory of multichromophoric coherent resonance energy transfer: A polaronic quantum master equation approach journal July 2011
Electronic excitation dynamics in multichromophoric systems described via a polaron-representation master equation journal October 2011
Potential and flux decomposition for dynamical systems and non-equilibrium thermodynamics: Curvature, gauge field, and generalized fluctuation-dissipation theorem journal December 2011
The energy pump and the origin of the non-equilibrium flux of the dynamical systems and the networks journal April 2012
Striations in chemical reactions journal September 1976
Path integral solutions of stochastic equations for nonlinear irreversible processes: The uniqueness of the thermodynamic Lagrangian journal July 1981
The interplay of tunneling, resonance, and dissipation in quantum barrier crossing: A numerical study journal June 1992
Calculation of classical trajectories with a very large time step: Formalism and numerical examples journal November 1996
The potential and flux landscape theory of evolution journal August 2012
A novel construction of complex-valued Gaussian processes with arbitrary spectral densities and its application to excitation energy transfer journal June 2013
Potential and flux field landscape theory. I. Global stability and dynamics of spatially dependent non-equilibrium systems journal September 2013
Statistical physics of self-replication journal September 2013
Treadmilling and length distributions of active polar filaments journal October 2013
Origin of long-lived oscillations in 2D-spectra of a quantum vibronic model: Electronic versus vibrational coherence journal December 2013
Curl flux, coherence, and population landscape of molecular systems: Nonequilibrium quantum steady state, energy (charge) transport, and thermodynamics journal June 2014
Potential and flux field landscape theory. II. Non-equilibrium thermodynamics of spatially inhomogeneous stochastic dynamical systems journal September 2014
Construction of the landscape for multi-stable systems: Potential landscape, quasi-potential, A-type integral and beyond journal March 2016
Biomolecules: Where the Physics of Complexity and Simplicity Meet journal February 1994
Robustness of circadian rhythms with respect to molecular noise journal January 2002
The yeast cell-cycle network is robustly designed journal March 2004
Stochastic model for Soj relocation dynamics in Bacillus subtilis journal July 2005
Absolute rate theories of epigenetic stability journal December 2005
Mechanics of actomyosin bonds in different nucleotide states are tuned to muscle contraction journal June 2006
Direct measurement of force generation by actin filament polymerization using an optical trap journal February 2007
An allosteric model of circadian KaiC phosphorylation journal April 2007
Synthetic cooperation in engineered yeast populations journal January 2007
Polymerization kinetics of ADP- and ADP-Pi-actin determined by fluorescence microscopy journal May 2007
Phenotypic variability of growing cellular populations journal November 2007
Tug-of-war as a cooperative mechanism for bidirectional cargo transport by molecular motors journal March 2008
Molecular level stochastic model for competence cycles in Bacillus subtilis journal October 2007
Intrinsic noise, dissipation cost, and robustness of cellular networks: The underlying energy landscape of MAPK signal transduction journal April 2008
Potential landscape and flux framework of nonequilibrium networks: Robustness, dissipation, and coherence of biochemical oscillations journal August 2008
Negative autoregulation linearizes the dose-response and suppresses the heterogeneity of gene expression journal March 2009
Multicopy plasmids are clustered and localized in Escherichia coli journal March 2001
Temporal self-organization of the cyclin/Cdk network driving the mammalian cell cycle journal December 2009
Fitness flux and ubiquity of adaptive evolution journal February 2010
Potential and flux landscapes quantify the stability and robustness of budding yeast cell cycle network journal April 2010
Two competing orientation patterns explain experimentally observed anomalies in growing actin networks journal March 2010
Probability landscape of heritable and robust epigenetic state of lysogeny in phage lambda journal October 2010
Simulation of cell motility that reproduces the force-velocity relationship journal May 2010
Robust circadian clocks from coupled protein-modification and transcription-translation cycles journal December 2010
Quantifying the Waddington landscape and biological paths for development and differentiation journal May 2011
Dynamic assembly of MinD on phospholipid vesicles regulated by ATP and MinE journal April 2002
Bidirectional cooperative motion of molecular motors journal May 2002
On the spontaneous collective motion of active matter journal August 2011
Spontaneous symmetry breaking in active droplets provides a generic route to motility journal July 2012
Meso-scale turbulence in living fluids journal August 2012
Coupling actin flow, adhesion, and morphology in a computational cell motility model journal April 2012
Geometry sensing by self-organized protein patterns journal September 2012
Electronic resonance with anticorrelated pigment vibrations drives photosynthetic energy transfer outside the adiabatic framework journal December 2012
Photosynthetic reaction center as a quantum heat engine journal January 2013
Eddy current and coupled landscapes for nonadiabatic and nonequilibrium complex system dynamics journal August 2013
Memory landscapes of single-enzyme molecules journal July 2000
Nonequilibrium landscape theory of neural networks journal October 2013
Dynamic determination of the functional state in photolyase and the implication for cryptochrome journal July 2013
MicroRNA-based regulation of epithelial-hybrid-mesenchymal fate determination journal October 2013
Prediction and measurement of an autoregulatory genetic module journal June 2003
Centrosomes are autocatalytic droplets of pericentriolar material organized by centrioles journal June 2014
Fluid flows created by swimming bacteria drive self-organization in confined suspensions journal June 2014
Stem cell differentiation as a many-body problem journal June 2014
Landscape and flux reveal a new global view and physical quantification of mammalian cell cycle journal September 2014
Modeling putative therapeutic implications of exosome exchange between tumor and immune cells journal September 2014
Topology, structures, and energy landscapes of human chromosomes journal April 2015
Intrinsic and extrinsic contributions to stochasticity in gene expression journal September 2002
On the complex dynamics of savanna landscapes journal January 2018
Dynamic structures in Escherichia coli: Spontaneous formation of MinE rings and MinD polar zones journal October 2003
Dynamics of microtubule asters in microfabricated chambers: The role of catastrophes journal December 2002
Stochastic gene expression as a many-body problem journal February 2003
Quantitative model for gene regulation by lambda phage repressor. journal February 1982
Neural networks and physical systems with emergent collective computational abilities. journal April 1982
Synchronous oscillations in microtubule polymerization. journal August 1987
Cytoplasts made from human blood polymorphonuclear leukocytes with or without heat: preservation of both motile function and respiratory burst oxidase activity. journal January 1987
Motion perception: seeing and deciding. journal January 1996
Symmetry and the energy landscapes of biomolecules journal December 1996
Assembly and positioning of microtubule asters in microfabricated chambers journal June 1997
Rapid treadmilling of brain microtubules free of microtubule-associated proteins in vitro and its suppression by tau journal October 1999
Rapid pole-to-pole oscillation of a protein required for directing division to the middle of Escherichia coli journal April 1999
The middle way journal January 2000
Myosin Motors Drive Long Range Alignment of Actin Filaments journal November 2009
Landscape and flux theory of non-equilibrium dynamical systems with application to biology journal January 2015
Finance and Economic Breakdown: Modeling Minsky’s “Financial Instability Hypothesis” journal July 1995
The Financial Instability Hypothesis: An Interpretation of Keynes and an Alternative to“Standard” Theory journal March 1977
Actin Depolymerizing Factor (ADF/Cofilin) Enhances the Rate of Filament Turnover: Implication in Actin-based Motility journal March 1997
Direct visualization of Ras proteins in spatially distinct cell surface microdomains journal January 2003
Isoform-specific insulin receptor signaling involves different plasma membrane domains journal December 2003
An actin molecular treadmill and myosins maintain stereocilia functional architecture and self-renewal journal March 2004
Global Stability in Many-Species Systems journal January 1977
A direct calculation of the tunnelling current. III. Effect of localized impurity states in the barrier journal November 1971
Direct calculation of the tunneling current journal June 1971
The fluctuation-dissipation theorem journal January 1966
Stochastic thermodynamics, fluctuation theorems and molecular machines journal November 2012
Emerging of Stochastic Dynamical Equalities and Steady State Thermodynamics from Darwinian Dynamics journal May 2008
Exact solution of a 1D asymmetric exclusion model using a matrix formulation journal April 1993
Potential in stochastic differential equations: novel construction journal January 2004
The potential and flux landscape, Lyapunov function and non-equilibrium thermodynamics for dynamic systems and networks with an application to signal-induced Ca 2+ oscillation journal December 2012
Density functional calculations of nanoscale conductance journal February 2008
Pattern formation in active cytoskeletal networks journal March 2008
Quantum localization and protein-assisted vibrational energy flow in cofactors journal August 2010
Hydrodynamics of active permeating gels journal September 2011
Membrane waves driven by forces from actin filaments journal November 2012
The Taylor–Couette motor: spontaneous flows of active polar fluids between two coaxial cylinders journal February 2012
Requirements for contractility in disordered cytoskeletal bundles journal March 2012
Active gel model of amoeboid cell motility journal February 2013
Spiral actin-polymerization waves can generate amoeboidal cell crawling journal May 2014
Active elastic thin shell theory for cellular deformations journal June 2014
Simple membrane-based model of the Min oscillator journal April 2015
Landscape, kinetics, paths and statistics of curl flux, coherence, entanglement and energy transfer in non-equilibrium quantum systems journal April 2015
Shape, orientation and magnitude of the curl quantum flux, the coherence and the statistical correlations in energy transport at nonequilibrium steady state journal September 2015
Unbounded growth patterns of reproducing, competing polymers—similarities to biological evolution journal October 2016
Nonlinear self-adapting wave patterns journal December 2016
Generic aspects of axonemal beating journal February 2000
Spontaneous waves in muscle fibres journal November 2007
Hydrodynamic theory for multi-component active polar gels journal November 2007
Collective Langevin dynamics of flexible cytoskeletal fibers journal November 2007
Stress generation by myosin minifilaments in actin bundles journal April 2013
Contractility and retrograde flow in lamellipodium motion journal June 2006
Active gels: dynamics of patterning and self-organization journal December 2006
Shape oscillations of non-adhering fibroblast cells journal November 2007
Multi-scale modelling of cancer cell intravasation: the role of cadherins in metastasis journal March 2009
Physical mechanism of mind changes and tradeoffs among speed, accuracy, and energy cost in brain decision making: Landscape, flux, and path perspectives journal July 2016
Probability currents as principal characteristics in the statistical mechanics of non-equilibrium steady states journal July 2007
Stochastic thermodynamics of bipartite systems: transfer entropy inequalities and a Maxwell’s demon interpretation journal February 2014
Mutual entropy production in bipartite systems journal April 2014
Mapping between dissipative and Hamiltonian systems journal July 2010
Statistical genetics and evolution journal April 1942
Integrative Analysis of Cell Cycle Control in Budding Yeast journal August 2004
Syntaxins 3 and 4 Are Concentrated in Separate Clusters on the Plasma Membrane before the Establishment of Cell Polarity journal February 2006
Analysis of turnover dynamics of the submembranous actin cortex journal March 2013
Modelling the fission yeast cell cycle journal January 2004
Using hidden Markov models to analyze gene expression time course data journal July 2003
Induction of T-cell memory by a dendritic cell vaccine: a computational model journal March 2014
A Role for Neural Integrators in Perceptual Decision Making journal November 2003
The evolution of multilocus systems under weak selection. journal June 1993
Disequilibrium, Selection, and Recombination: Limits in Two-Locus, Two-Allele Models journal July 1981
The Role of Theoretical Ecology in the Description and Understanding of Populations in Heterogeneous Environments journal November 1981
Mathematical models of immune-induced cancer dormancy and the emergence of immune evasion journal August 2013
Effects of molecular noise on bistable protein distributions in rod-shaped bacteria journal December 2014
Model for self-polarization and motility of keratocyte fragments journal September 2011
Quasi-potential landscape in complex multi-stable systems journal July 2012
Quantifying the underlying landscape and paths of cancer journal November 2014
Uncovering the mechanisms of Caenorhabditis elegans ageing from global quantification of the underlying landscape journal November 2016
Uncovering the underlying mechanism of cancer tumorigenesis and development under an immune microenvironment from global quantification of the landscape journal June 2017
Quantum Theory, the Church-Turing Principle and the Universal Quantum Computer journal July 1985
The Local Structure of Turbulence in Incompressible Viscous Fluid for Very Large Reynolds Numbers journal July 1991
Dissipation of Energy in the Locally Isotropic Turbulence journal July 1991
Quantum computers and dissipation
  • Palma, and, G. Massimo; Suominen, Kalle-antti; Ekert, Artur
  • Proceedings of the Royal Society of London. Series A: Mathematical, Physical and Engineering Sciences, Vol. 452, Issue 1946, p. 567-584 https://doi.org/10.1098/rspa.1996.0029
journal January 1996
Quantum effects in biology: golden rule in enzymes, olfaction, photosynthesis and magnetodetection journal May 2017
The chemical basis of morphogenesis journal August 1952
The AMP-activated protein kinase AAK-2 links energy levels and insulin-like signals to lifespan in C. elegans journal December 2004
Gene activities that mediate increased life span of C. elegans insulin-like signaling mutants journal November 2007
Reciprocal Relations in Irreversible Processes. I. journal February 1931
Fluctuations and Irreversible Processes journal September 1953
Maintaining coherence in quantum computers journal February 1995
Volume of the set of separable states journal August 1998
Entanglement in the XX spin chain with an energy current journal April 2005
Nonequilibrium thermal entanglement journal March 2007
Dynamics of nonequilibrium thermal entanglement journal December 2008
Quantum effects in thermal conduction: Nonequilibrium quantum discord and entanglement journal July 2011
Energy and momentum balance equations: An approach to quantum transport in closed circuits journal July 2002
Quantum master equation for electron transport through quantum dots and single molecules journal December 2006
Nonequilibrium entanglement and noise in coupled qubits journal January 2007
Transport in molecular states language: Generalized quantum master equation approach journal May 2009
Nonequilibrium-induced enhancement of dynamical quantum coherence and entanglement of spin arrays journal April 2017
Equilibrium free-energy differences from nonequilibrium measurements: A master-equation approach journal November 1997
Entropy production fluctuation theorem and the nonequilibrium work relation for free energy differences journal September 1999
Self-organization and mechanical properties of active filament bundles journal May 2003
Optimal path to epigenetic switching journal January 2005
Pattern formation of microtubules and motors: Inelastic interaction of polar rods journal May 2005
Self-regulating gene: An exact solution journal November 2005
Cluster phases of membrane proteins journal January 2008
Least dissipation cost as a design principle for robustness and function of cellular networks journal March 2008
Robust ecological pattern formation induced by demographic noise journal September 2009
Physical origins of entropy production, free energy dissipation, and their mathematical representations journal May 2010
Evolutionary dynamics, intrinsic noise, and cycles of cooperation journal June 2010
Three faces of the second law. II. Fokker-Planck formulation journal July 2010
Leading-edge–gel coupling in lamellipodium motion journal November 2010
Quantum transport efficiency and Fourier's law journal December 2012
Asymmetry between pushing and pulling for crawling cells journal February 2013
Information-theoretic versus thermodynamic entropy production in autonomous sensory networks journal April 2013
Dynamics of defects in an active nematic layer journal November 2013
Time reversibility and nonequilibrium thermodynamics of second-order stochastic processes journal February 2014
Segregation of diffusible and directionally moving particles on a polar filament journal April 2014
Optimal rectification in the ultrastrong coupling regime journal June 2014
Stochastic thermodynamics with information reservoirs journal October 2014
Generation of stationary and moving vortices in active polar fluids in the planar Taylor-Couette geometry journal November 2014
Framework for analyzing ecological trait-based models in multidimensional niche spaces journal May 2015
Nonequilibrium statistical mechanics of mixtures of particles in contact with different thermostats journal September 2015
Coevolution of nodes and links: Diversity-driven coexistence in cyclic competition of three species journal February 2019
Domain Formation in the Plasma Membrane: Roles of Nonequilibrium Lipid Transport and Membrane Proteins journal April 2008
Viscous-Fingering-Like Instability of Cell Fragments journal June 2008
Instability of Spatial Patterns and Its Ambiguous Impact on Species Diversity journal July 2008
Pushing off the Walls: A Mechanism of Cell Motility in Confinement journal February 2009
Transformation from Spots to Waves in a Model of Actin Pattern Formation journal May 2009
Hydrodynamics of Cellular Cortical Flows and the Formation of Contractile Rings journal July 2009
Generalized Fluctuation-Dissipation Theorem for Steady-State Systems journal August 2009
Dendritic Actin Filament Nucleation Causes Traveling Waves and Patches journal June 2010
Dynamic Instabilities in Assemblies of Molecular Motors with Finite Stiffness journal June 2010
Computational Model for Cell Morphodynamics journal September 2010
Pattern Formation in Active Fluids journal January 2011
Motion Reversal of Molecular Motor Assemblies due to Weak Noise journal February 2011
Determining the Stability of Genetic Switches: Explicitly Accounting for mRNA Noise journal June 2011
Instabilities of Monolayered Epithelia: Shape and Structure of Villi and Crypts journal August 2011
General Mechanism of Actomyosin Contractility journal September 2011
Cell Motility Resulting from Spontaneous Polymerization Waves journal December 2011
Contractile Units in Disordered Actomyosin Bundles Arise from F-Actin Buckling journal June 2012
Length Regulation of Active Biopolymers by Molecular Motors journal June 2012
Microtubule Length Regulation by Molecular Motors journal June 2012
Spontaneous Motility of Actin Lamellar Fragments journal February 2013
Intracellular Mechanochemical Waves in an Active Poroelastic Model journal March 2013
Defect Annihilation and Proliferation in Active Nematics journal May 2013
Confinement Stabilizes a Bacterial Suspension into a Spiral Vortex journal June 2013
Spatial Organization of the Cell Cytoplasm by Position-Dependent Phase Separation journal August 2013
Contraction-Driven Cell Motility journal September 2013
Locally and Globally Coupled Oscillators in Muscle journal September 2013
Velocity Correlations in an Active Nematic journal September 2013
Periodic Migration in a Physical Model of Cells on Micropatterns journal October 2013
Pulsatory Patterns in Active Fluids journal May 2014
Spontaneous Oscillations of Elastic Contractile Materials with Turnover journal October 2014
Multiscale Polar Theory of Microtubule and Motor-Protein Assemblies journal January 2015
Optimal Prediction by Cellular Signaling Networks journal December 2015
Role of Turnover in Active Stress Generation in a Filament Network journal May 2016
Exclusion and Hierarchy of Time Scales Lead to Spatial Segregation of Molecular Motors in Cellular Protrusions journal January 2017
Spatiotemporal Patterns of Noise-Driven Confined Actin Waves in Living Cells journal January 2017
Anomalous Quantum Hall Effect: An Incompressible Quantum Fluid with Fractionally Charged Excitations journal May 1983
Scanning Tunneling Microscopy Observations of Benzene Molecules on the Rh(111)-(3 × 3) ( C 6 H 6 + 2CO) Surface journal June 1988
Boundary-induced phase transitions in driven diffusive systems journal September 1991
Reaction-Controlled Morphology of Phase-Separating Mixtures journal March 1995
Cooperative Molecular Motors journal September 1995
Nonequilibrium Equality for Free Energy Differences journal April 1997
Spontaneous Oscillations of Collective Molecular Motors journal June 1997
Fluctuation-Dissipation Theorems and Entropy Production in Relaxational Systems journal September 1997
Entanglement of Formation of an Arbitrary State of Two Qubits journal March 1998
Actively Contracting Bundles of Polar Filaments journal August 2000
Steady-State Thermodynamics of Langevin Systems journal April 2001
Epigenetics as a First Exit Problem journal January 2002
Phase Coexistence in Driven One-Dimensional Transport journal February 2003
Instabilities of Isotropic Solutions of Active Polar Filaments journal April 2003
Asters, Vortices, and Rotating Spirals in Active Gels of Polar Filaments journal February 2004
Self-Concentration and Large-Scale Coherence in Bacterial Dynamics journal August 2004
Control of Relative Tunneling Rates in Single Molecule Bipolar Electron Transport journal December 2004
Theory of Mitotic Spindle Oscillations journal March 2005
Experimental Test of the Fluctuation Theorem for a Driven Two-Level System with Time-Dependent Rates journal May 2005
Entropy Production along a Stochastic Trajectory and an Integral Fluctuation Theorem journal July 2005
Nonequilibrium Raftlike Membrane Domains under Continuous Recycling journal October 2005
Quantum Spin Hall Effect journal March 2006
Dominant Kinetic Paths on Biomolecular Binding-Folding Energy Landscape journal April 2006
Lateral Membrane Waves Constitute a Universal Dynamic Pattern of Motile Cells journal July 2006
Dominant Pathways in Protein Folding journal September 2006
Membrane Waves Driven by Actin and Myosin journal April 2007
Noise and Correlations in a Spatial Population Model with Cyclic Competition journal December 2007
Thermodynamics with Continuous Information Flow journal July 2014
Geometrical Origins of Contractility in Disordered Actomyosin Networks journal October 2014
Network theory of microscopic and macroscopic behavior of master equation systems journal October 1976
Kinetic equations from Hamiltonian dynamics: Markovian limits journal July 1980
Dynamics of the dissipative two-state system journal January 1987
Modeling molecular motors journal October 1997
Statistical genetics and evolution of quantitative traits journal November 2011
Principles of maximum entropy and maximum caliber in statistical physics journal July 2013
Hydrodynamics of soft active matter journal July 2013
Physics of adherent cells journal August 2013
An Active Pulse Transmission Line Simulating Nerve Axon journal October 1962
Synthetic microbial ecosystems: an exciting tool to understand and apply microbial communities: Synthetic microbial ecosystems journal December 2013
Extension of covariance selection mathematics journal April 1972
Fisher's ?fundamental theorem? made clear journal November 1972
A quantitative description of membrane current and its application to conduction and excitation in nerve journal August 1952
Theory and measurements of room temperature transport in graphene using SiO[sub 2] backgate and electrochemical gate
  • Shishir, R. S.; Chen, F.; Xia, J.
  • Journal of Vacuum Science & Technology B: Microelectronics and Nanometer Structures, Vol. 27, Issue 4 https://doi.org/10.1116/1.3156733
journal January 2009
Actin kinetics shapes cortical network structure and mechanics journal April 2016
Spatial interference scale as a determinant of microbial range expansion journal November 2018
Physical Properties Determining Self-Organization of Motors and Microtubules journal May 2001
Stochastic Gene Expression in a Single Cell journal August 2002
Equilibrium Information from Nonequilibrium Measurements in an Experimental Test of Jarzynski's Equality journal June 2002
DAF-16 Target Genes That Control C. elegans Life-Span and Metabolism journal April 2003
No Transcription-Translation Feedback in Circadian Rhythm of KaiC Phosphorylation journal January 2005
Reconstitution of Circadian Oscillation of Cyanobacterial KaiC Phosphorylation in Vitro journal April 2005
Probing Gene Expression in Live Cells, One Protein Molecule at a Time journal March 2006
Tunability and Noise Dependence in Differentiation Dynamics journal March 2007
Anatomy and Dynamics of a Supramolecular Membrane Protein Cluster journal August 2007
Coherence Dynamics in Photosynthesis: Protein Protection of Excitonic Coherence journal June 2007
Ordered Phosphorylation Governs Oscillation of a Three-Protein Circadian Clock journal November 2007
Spatial Regulators for Bacterial Cell Division Self-Organize into Surface Waves in Vitro journal May 2008
SYSTEMS BIOLOGY: Attractors and Democratic Dynamics journal February 2009
Simpson's Paradox in a Synthetic Microbial System journal January 2009
Germline P Granules Are Liquid Droplets That Localize by Controlled Dissolution/Condensation journal May 2009
Cilia-Like Beating of Active Microtubule Bundles journal July 2011
Polarization of PAR Proteins by Advective Triggering of a Pattern-Forming System journal October 2011
Forces Driving Epithelial Spreading in Zebrafish Gastrulation journal October 2012
Enzyme Kinetics, Past and Present journal December 2013
Topology and dynamics of active nematic vesicles journal September 2014
More Is Different journal August 1972
Domain Shapes and Patterns: The Phenomenology of Modulated Phases journal January 1995
daf-2, an Insulin Receptor-Like Gene That Regulates Longevity and Diapause in Caenorhabditis elegans journal August 1997
Conductance of a Molecular Junction journal October 1997
Measurement of the Force-Velocity Relation for Growing Microtubules journal October 1997
Expression of a Gene Cluster kaiABC as a Circadian Feedback Process in Cyanobacteria journal September 1998
Polar location of the chemoreceptor complex in the Escherichia coli cell journal March 1993
Emergent genetic oscillations in a synthetic microbial consortium journal August 2015
Emergent cellular self-organization and mechanosensation initiate follicle pattern in the avian skin journal July 2017
Stability and Instability in the Lysogenic State of Phage Lambda journal September 2010
Physics of Bacterial Morphogenesis journal November 2011
The TetR Family of Transcriptional Repressors journal June 2005
Pattern Generation in Space and Aspect journal March 1985
Limiting Exit Location Distributions in the Stochastic Exit Problem journal June 1997
Stochastic thermodynamics: principles and perspectives journal January 2008
Generic theory of active polar gels: a paradigm for cytoskeletal dynamics journal January 2005
The actin cortex as an active wetting layer journal May 2013
Active polar fluid flow in finite droplets journal February 2014
Quantum Dissipative Systems book March 2012
Statistical-Mechanical Theory of Irreversible Processes. I. General Theory and Simple Applications to Magnetic and Conduction Problems journal June 1957
Stochastic Liouville, Langevin, Fokker–Planck, and Master Equation Approaches to Quantum Dissipative Systems journal August 2006
The Role of Mechanical Forces in Plant Morphogenesis journal June 2011
Protein Self-Organization: Lessons from the Min System journal June 2011
Design Principles of Length Control of Cytoskeletal Structures journal July 2016
Genetics of Longevity in Model Organisms: Debates and Paradigm Shifts journal February 2013
The Biology of Cancer Stem Cells journal November 2007
The Evolutionary Interaction Among Species: Selection, Escalation, and Coevolution journal November 1994
Genetic Networks Controlling the Initiation of Sporulation and the Development of Genetic Competence in Bacillus subtilis journal December 1995
Switches in Bacteriophage Lambda Development journal December 2005
Quorum Sensing in Bacteria journal October 2001
Chemical and Electrochemical Electron-Transfer Theory journal October 1964
Phosphorylation Energy Hypothesis: Open Chemical Systems and Their Biological Functions journal May 2007
The red Queen Hypothesis and Plant/Pathogen Interactions journal September 1996
Logical Reversibility of Computation journal November 1973
Irreversibility and Heat Generation in the Computing Process journal July 1961
A limit cycle mathematical model of the REM sleep oscillator system journal December 1986
Neural Basis of a Perceptual Decision in the Parietal Cortex (Area LIP) of the Rhesus Monkey journal October 2001
Toward Decoding the Principles of Cancer Metastasis Circuits journal September 2014
Quantifying the Landscape for Development and Cancer from a Core Cancer Stem Cell Circuit journal May 2015
Programming the group behaviors of bacterial communities with synthetic cellular communication journal November 2014
Rafts defined: a report on the Keystone symposium on lipid rafts and cell function journal April 2006
Environmental control of microtubule-based bidirectional cargo transport journal July 2014
Fluctuation-dissipation theorem for nonequilibrium quantum systems journal July 2016
Cytoskeletal waves in the absence of molecular motors journal June 2008
Fluctuation-dissipation theorem in nonequilibrium steady states journal January 2010
Filament turnover stabilizes contractile cytoskeletal structures journal September 2010
Nonequilibrium thermodynamics as a gauge theory journal January 2012
Spontaneous flow transition in active polar gels journal May 2005
A simple mechanism of raft formation in two-component fluid membranes journal August 2005
Dynamic disorder in horseradish peroxidase observed with total internal reflection fluorescence correlation spectroscopy journal January 2007
Correction: Funneled Landscape Leads to Robustness of Cell Networks: Yeast Cell Cycle journal September 2013
An Actin-Based Wave Generator Organizes Cell Motility journal August 2007
Regulated Fluctuations in Nanog Expression Mediate Cell Fate Decisions in Embryonic Stem Cells journal July 2009
An Adhesion-Dependent Switch between Mechanisms That Determine Motile Cell Shape journal May 2011
Changes in Oscillatory Dynamics in the Cell Cycle of Early Xenopus laevis Embryos journal February 2014
Noise Contributions in an Inducible Genetic Switch: A Whole-Cell Simulation Study journal March 2011
Changes of Mind in an Attractor Network of Decision-Making journal June 2011
Quantifying Cell Fate Decisions for Differentiation and Reprogramming of a Human Stem Cell Network: Landscape and Biological Paths journal August 2013
Membrane Binding of MinE Allows for a Comprehensive Description of Min-Protein Pattern Formation journal December 2013
Time Scales in Epigenetic Dynamics and Phenotypic Heterogeneity of Embryonic Stem Cells journal December 2013
Energy Landscape Reveals That the Budding Yeast Cell Cycle Is a Robust and Adaptive Multi-stage Process journal March 2015
Antenna Mechanism of Length Control of Actin Cables journal June 2015
A thermodynamically consistent model of the post-translational Kai circadian clock journal March 2017
Funneled potential and flux landscapes dictate the stabilities of both the states and the flow: Fission yeast cell cycle journal September 2017
Stress Generation and Filament Turnover during Actin Ring Constriction journal August 2007
Optimal Signal Processing in Small Stochastic Biochemical Networks journal October 2007
Boolean Network Model Predicts Cell Cycle Sequence of Fission Yeast journal February 2008
A Computational Model for Understanding Stem Cell, Trophectoderm and Endoderm Lineage Determination journal October 2008
Potential Landscape and Probabilistic Flux of a Predator Prey Network journal March 2011
A Multiple-Choice Task with Changes of Mind journal August 2012
Effects of Adhesion Dynamics and Substrate Compliance on the Shape and Motility of Crawling Cells journal May 2013
Interstitial Fluid Flow and Drug Delivery in Vascularized Tumors: A Computational Model journal August 2013
The Potential and Flux Landscape Theory of Ecology journal January 2014
Constructing the Energy Landscape for Genetic Switching System Driven by Intrinsic Noise journal February 2014
Exploring the Mechanisms of Differentiation, Dedifferentiation, Reprogramming and Transdifferentiation journal August 2014
Dynamics of Actin Waves on Patterned Substrates: A Quantitative Analysis of Circular Dorsal Ruffles journal January 2015
Molecular Interactions of the Min Protein System Reproduce Spatiotemporal Patterning in Growing and Dividing Escherichia coli Cells journal May 2015
A Physical Mechanism and Global Quantification of Breast Cancer journal July 2016
Landscape and flux for quantifying global stability and dynamics of game theory journal August 2018
Response of Neurons in the Lateral Intraparietal Area during a Combined Visual Discrimination Reaction Time Task journal November 2002
A Recurrent Network Mechanism of Time Integration in Perceptual Decisions journal January 2006
Neural Activity in Macaque Parietal Cortex Reflects Temporal Integration of Visual Motion Signals during Perceptual Decision Making journal November 2005
Isolated cell behavior drives the evolution of antibiotic resistance journal July 2015
Real-Time Measurements of Actin Filament Polymerization by Total Internal Reflection Fluorescence Microscopy journal February 2005
Mobile Actin Clusters and Traveling Waves in Cells Recovering from Actin Depolymerization journal November 2004
Micromechanical Architecture of the Endothelial Cell Cortex journal January 2005
Quantifying Kinetic Paths of Protein Folding journal September 2005
Cortical Actomyosin Breakage Triggers Shape Oscillations in Cells and Cell Fragments journal July 2005
Quantifying the Kinetic Paths of Flexible Biomolecular Recognition journal August 2006
Quantifying Robustness and Dissipation Cost of Yeast Cell Cycle Network: The Funneled Energy Landscape Perspectives journal June 2007
Molecular Motor-Induced Instabilities and Cross Linkers Determine Biopolymer Organization journal December 2007
A Quantitative Analysis of Contractility in Active Cytoskeletal Protein Networks journal April 2008
Actin Polymerization Overshoots and ATP Hydrolysis as Assayed by Pyrene Fluorescence journal August 2008
Reversing the Life Cycle: Medusae Transforming into Polyps and Cell Transdifferentiation in Turritopsis nutricula (Cnidaria, Hydrozoa) journal June 1996
The Debt-Deflation Theory of Great Depressions journal October 1933
The Price Equilibrium Existence Problem in Topological Vector Lattices journal September 1986
Simultaneous Price and Quantity Adjustment in a Single Market journal August 1969
Homeostatic competition drives tumor growth and metastasis nucleation journal August 2009
Myxobacteria: Moving, Killing, Feeding, and Surviving Together journal May 2016
A frequency-dependent decoding mechanism for axonal length sensing journal July 2015
Neural circuit dynamics underlying accumulation of time-varying evidence during perceptual decision making journal January 2007
Information Landscape and Flux, Mutual Information Rate Decomposition and Connections to Entropy Production journal December 2017
The Functional Response of Predators to Prey Density and its Role in Mimicry and Population Regulation journal January 1965
The genetical theory of natural selection. book January 1930
Active torque generation by the actomyosin cell cortex drives left–right symmetry breaking journal December 2014
Active contraction of microtubule networks journal December 2015
Cortical flow aligns actin filaments to form a furrow journal October 2016
Mapping out Min protein patterns in fully confined fluidic chambers journal November 2016

Similar Records

Adaptive Optical Two-Photon Fluorescence Microscopy Probes Cellular Organization of Ocular Lenses In Vivo
Journal Article · 2023 · Investigative Opthalmology & Visual Science · OSTI ID:2470995

NMR in biology and medicine
Book · 1986 · OSTI ID:7165366

Nano-Enabled Synthetic Biology
Journal Article · 2007 · Molecular Systems Biology · OSTI ID:930976