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From Thermodynamics of Computation
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List of results
- Classical and quantum fluctuation theorems for heat exchange + (Christopher Jarzynski)
- The brain's default network: Anatomy, function, and relevance to disease + (Randy L. Buckner)
- Bayesian integration in sensorimotor learning + (Konrad P. Körding)
- Theory of a Systematic Computational Error in Free Energy Differences + (Daniel M. Zuckerman)
- Single-ensemble nonequilibrium path-sampling estimates of free energy differences + (F. Marty Ytreberg)
- An intermediate level of abstraction for computational systems chemistry + (Jakob L. Andersen)
- Maximizing output and recognizing autocatalysis in chemical reaction networks is NP-complete + (Jakob L. Andersen)
- Intraglomerular inhibition: Signaling mechanisms of an olfactory microcircuit + (Gabe J. Murphy)
- A rigorous derivation of the chemical master equation + (Daniel T. Gillespie)
- A general method for numerically simulating the stochastic time evolution of coupled chemical reactions + (Daniel T. Gillespie)
- Gallavotti-Cohen-Type Symmetry Related to Cycle Decompositions for Markov Chains and Biochemical Applications + (Alessandra Faggionato)
- Efficient physical embedding of topologically complex information processing networks in brains and computer circuits + (Danielle S. Bassett)
- Human brain networks in health and disease + (Danielle S. Bassett)
- Small-world brain networks + (Danielle Smith Bassett)
- TrxG and PcG proteins but not methylated histones remain associated with DNA through replication + (Svetlana Petruk)
- Chromatin structure and the inheritance of epigenetic information + (Raphaël Margueron)
- Role of the polycomb protein EED in the propagation of repressive histone marks + (Raphael Margueron)
- Emergent complex neural dynamics + (Dante R. Chialvo)
- Organization, development and function of complex brain networks + (Olaf Sporns)
- Functional brain network efficiency predicts intelligence + (Nicolas Langer)
- Modular verification of chemical reaction network encodings via serializability analysis + (Matthew R. Lakin)
- Cooperative binding of two acetylation marks on a histone tail by a single bromodomain + (Jeanne Morinière)
- Discriminatory proofreading regimes in nonequilibrium systems + (Arvind Murugan)
- Synthetic molecular motors and mechanical machines + (Euan R. Kay)
- A molecular information ratchet + (Viviana Serreli)
- Rapid Neocortical Dynamics: Cellular and Network Mechanisms + (Bilal Haider)
- Inhibitory postsynaptic potentials carry synchronized frequency information in active cortical networks + (Andrea Hasenstaub)
- Measures of trajectory ensemble disparity in nonequilibrium statistical dynamics + (David A. Sivak)
- Thermodynamics of prediction + (Susanne Still)
- Thermodynamics of genuine nonequilibrium states under feedback control + (David Abreu)
- Fluctuation theorem for currents and Schnakenberg network theory + (David Andrieux)
- Fluctuation theorem for transport in mesoscopic systems + (David Andrieux)
- Fluctuation theorems and the nonequilibrium thermodynamics of molecular motors + (David Andrieux)
- Network and thermodynamic conditions for a single macroscopic current fluctuation theorem + (David Andrieux)
- A fluctuation theorem for currents and non-linear response coefficients + (David Andrieux)
- Energy use constrains brain information processing + (Julia J. Harris)
- The neural basis of functional brain imaging signals + (David Attwell)
- Neuroenergetics and the kinetic design of excitatory synapses + (David Attwell)
- The role of glial glutamate transporters in maintaining the independent operation of juvenile mouse cerebellar parallel fibre synapses + (Païkan Marcaggi)
- Asymmetrically modified nucleosomes + (Philipp Voigt)
- Integrated information in discrete dynamical systems: Motivation and theoretical framework + (David Balduzzi)
- Qualia: The geometry of integrated information + (David Balduzzi)
- Why do female primates have such long lifespans and so few babies? or Life in the slow lane + (Eric L. Charnov)
- Profiling a Warehouse-Scale Computer + (Svilen Kanev)
- Darwinian demons, evolutionary complexity, and information maximization + (David C. Krakauer)
- Innovation in gene regulation: The case of chromatin computation + (Sonja J. Prohaska)
- Challenges for complexity measures: A perspective from social dynamics and collective social computation + (Jessica C. Flack)
- Defining genes: A computational framework + (Sonja J. Prohaska)
- A tension-based theory of morphogenesis and compact wiring in the central nervous system + (David C. Van Essen)
- Distributed hierarchical processing in the primate cerebral cortex + (Daniel J. Felleman)
- Exploring the thermodynamic limits of computation in integrated systems: Magnetic memory, nanomagnetic logic, and the landauer limit + (Brian Lambson)
- Optimized free energies from bidirectional single-molecule force spectroscopy + (David D.L. Minh)
- Density-dependent analysis of nonequilibrium paths improves free energy estimates II. A Feynman-Kac formalism + (David D.L. Minh)
- Multidimensional potentials of mean force from biased experiments along a single coordinate + (David D.L. Minh)
- Estimating equilibrium ensemble averages using multiple time slices from driven nonequilibrium processes: Theory and application to free energies, moments, and thermodynamic length in single-molecule pulling experiments + (John D. Chodera)
- Free-energy reconstruction from experiments performed under different biasing programs + (David D.L. Minh)
- Transitions from Nonliving to Living Matter + (Steen Rasmussen)
- Leaderless deterministic chemical reaction networks + (David Doty)
- Genetic Algorithms, Tournament Selection, and the Effects of Noise + (Brad L Miller)
- A quantitative analysis of sniffing strategies in rats performing odor detection tasks + (Steven L. Youngentob)
- Quantum thermodynamics for a model of an expanding Universe + (Nana Liu)
- A simple population protocol for fast robust approximate majority + (Dana Angluin)
- Fast computation by population protocols with a leader + (Dana Angluin)
- Minimal model for Brownian vortexes + (Bo Sun)
- Design of a trichromatic cone array + (Patrick Garrigan)
- The free energy requirements of biological organisms; implications for evolution + (David H. Wolpert)
- Efficiency of cellular information processing + (Andre C. Barato)
- Rate of Mutual Information Between Coarse-Grained Non-Markovian Variables + (Andre C. Barato)
- Sparse coding with an overcomplete basis set: A strategy employed by V1? + (Bruno A. Olshausen)
- A C. elegans LSD1 Demethylase Contributes to Germline Immortality by Reprogramming Epigenetic Memory + (David J. Katz)
- An architecture for fault-tolerant computation with stochastic logic + (Weikang Qian)
- Stochastic functions using sequential logic + (Naman Saraf)
- Computation on stochastic bit streams digital image processing case studies + (Peng Li)
- A stochastic reconfigurable architecture for fault-tolerant computation with sequential logic + (Peng Li)
- Logical computation on stochastic bit streams with linear finite-state machines + (Peng Li)
- Variable channel expression in identified single and electrically coupled neurons in different animals + (David J. Schulz)
- Inequalities generalizing the second law of thermodynamics for transitions between nonstationary states + (Gatien Verley)
- Glucans monomer-exchange dynamics as an open chemical network + (Riccardo Rao)
- Modified fluctuation-dissipation theorem near non-equilibrium states and applications to the Glauber-Ising chain + (Gatien Verley)
- A method for measuring cerebral glucose metabolism in vivo by 13C-NMR spectroscopy + (David M. Cohen)
- Neurophysiological architecture of functional magnetic resonance images of human brain + (Raymond Salvador)
- Modular and hierarchically modular organization of brain networks + (David Meunier)
- Age-related changes in modular organization of human brain functional networks + (David Meunier)
- A Gallavotti-Cohen-Evans-Morriss Like Symmetry for a Class of Markov Jump Processes + (Andre Cardoso Barato)
- Role of Astrocytes in Matching Blood Flow to Neuronal Activity + (Danica Jakovcevic)
- Localization transitions in non-hermitian quantum mechanics + (Naomichi Hatano)
- Fluctuation-dissipation theorems and entropy production in relaxational systems + (Leticia F. Cugliandolo)
- Nucleosome organization in the Drosophila genome + (Travis N. Mavrich)
- Structure and function of a human TAF(II)250 double bromodomain module + (Raymond H. Jacobson)
- An analog of the Boltzmann H-theorem (a Liapunov function) for systems of coupled chemical reactions + (David Shear)
- Deterministic Function Computation with Chemical Reaction Network + (Ho Lin Chen)
- Computation with finite stochastic chemical reaction networks + (David Soloveichik)
- DNA as a universal substrate for chemical kinetics (Extended Abstract) + (David Soloveichik)
- Programmable chemical controllers made from DNA + (Yuan Jyue Chen)
- Enzyme-free nucleic acid dynamical systems + (Niranjan Srinivas)
- Deterministic function computation with chemical reaction networks + (Ho Lin Chen)
- Efficient turing-universal computation with DNA polymers + (Lulu Qian)
- Probing the Limits to Positional Information + (Thomas Gregor)
- Drivers of bacterial maintenance and minimal energy requirements + (Peter M. van Bodegom)
- Enzyme-free nucleic acid logic circuits + (Georg Seelig)
- Dynamic DNA nanotechnology using strand-displacement reactions + (David Yu Zhang)
- Control of DNA strand displacement kinetics using toehold exchange + (David Yu Zhang)
- Effective temperature of active matter + (Davide Loi)
- Covalent modifications of histones during mitosis and meiosis + (Dazhong Xu)
- Low-power digital signal processing using approximate adders + (Vaibhav Gupta)
- Single-molecule thermodynamics: The heat distribution function of a charged particle in a static magnetic field + (Debarati Chatterjee)
- Exact path-integral evaluation of the heat distribution function of a trapped Brownian oscillator + (Debarati Chatterjee)
- Bona fide stochastic resonance: A view point from stochastic energetics + (Debasis Dan)
- Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMENTHYLASE3 + (Anders M. Lindroth)
- Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements + (Anshul Kundaje)
- A small world of neuronal synchrony + (Shan Yu)
- Consensus paper: The cerebellum's role in movement and cognition + (Leonard F. Koziol)
- A Map of the Interactome Network of the Metazoan C. elegans + (Siming Li)
- Equilibrium microstates which generate second law violating steady states + (Denis J. Evans)
- Probability of second law violations in shearing steady states + (Denis J. Evans)
- Fluctuations and irreversibility: An experimental demonstration of a second-law-like theorem using a colloidal particle held in an optical trap + (D. M. Carberry)
- Experimental study of the fluctuation theorem in a nonequilibrium steady state + (G. M. Wang)
- SRAM for error-tolerant applications with dynamic energy-quality management in 28 nm CMOS + (Fabio Frustaci)
- High nucleosome occupancy is encoded at human regulatory sequences + (Desiree Tillo)
- Observation of parity-time symmetry in optics + (Christian E. Rüter)
- Fluctuation theorems for an asymmetric rotor in a granular gas + (Sylvain Joubaud)
- Relationship between subsistence and age at weaning in "preindustrial" societies + (Daniel W. Sellen)
- Reprint of: Digital and spatial knowledge management in urban governance: Emerging issues in India, Brazil, South Africa, and Peru + (Isa Baud)
- Maxwell's refrigerator: An exactly solvable model + (Dibyendu Mandal)
- Quantum-to-classical transition in the work distribution for chaotic systems + (Ignacio García-Mata)
- A model for transmission of the H3K27me3 epigenetic mark + (Klaus H. Hansen)
- Thermophoretic depletion follows boltzmann distribution + (Stefan Duhr)
- General peroxidase activity of G-quadruplex-hemin complexes and its application in ligand screening + (Xiaohong Cheng)
- Experimental test of the quantum Jarzynski equality with a trapped-ion system + (Shuoming An)
- Recognition of a mononucleosomal histone modification pattern by BPTF via multivalent interactions + (Alexander J. Ruthenburg)
- Combinatorial readout of dual histone modifications by paired chromatin-associated modules + (Zhanxin Wang)
- Progressive methylation of ageing histones by Dot1 functions as a timer + (Dirk De Vos)
- Energy allocation between brain and body during ontogenetic development + (Britta Kubera)
- Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels + (Sylvia C. Tippmann)
- Structural properties of the Caenorhabditis elegans neuronal network + (Lav R. Varshney)
- Synaptic connectivity and neuronal morphology: Two sides of the same coin + (Dmitri B. Chklovskii)
- Wiring economy and volume exclusion determine neuronal placement in the Drosophila brain + (Marta Rivera-Alba)
- Binocular disparity can explain the orientation of ocular dominance stripes in primate primary visual area (V1) + (Dmitri B. Chklovskii)
- Local potential connectivity in cat primary visual cortex + (Armen Stepanyants)
- Spontaneously emerging cortical representations of visual attributes + (Tal Kenet)
- Evidence for early life in Earth's oldest hydrothermal vent precipitates + (Matthew S. Dodd)
- Thermodynamic efficiency of information and heat flow + (Armen E. Allahverdyan)
- The lag-phase during diauxic growth is a trade-off between fast adaptation and high growth rate + (Dominique Chu)
- Limited by sensing - A minimal stochastic model of the lag-phase during diauxic growth + (Dominique Chu)
- In silico evolution of diauxic growth + (Dominique F. Chu)
- On thermodynamic interpretation of transfer entropy + (Mikhail Prokopenko)
- Growth processes in teeth distinguish modern humans from Homo erectus and earlier hominins + (Christopher Dean)
- Proactive Control of Approximate Programs + (Xin Sui)
- Application-level correctness and its impact on fault tolerance + (Xuanhua Li)
- Exploiting Soft Computing for Increased Fault Tolerance + (Xuanhua Li)
- Genome evolution and adaptation in a long-term experiment with Escherichia coli + (Jeffrey E. Barrick)
- An examination of the role of autocatalytic cycles in the chemistry of proposed primordial reactions + (Donna G. Blackmond)
- Correlated evolution of nearby residues in drosophilid proteins + (Benjamin Callahan)
- Memory improves precision of cell sensing in fluctuating environments + (Gerardo Aquino)
- Changes in brain weights during the span of human life: Relation of brain weights to body heights and body weights + (Anatole S. Dekaban)
- Complex Extension of Quantum Mechanics + (Carl M. Bender)
- Biorthogonal quantum mechanics + (Dorje C. Brody)
- Stretching the limits of clock-gating efficiency in server-class processors + (Hans Jacobson)
- Chemotaxis in Escherichia coli analysed by three-dimensional tracking + (Howard C. Berg)
- ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity + (Matthew D. Young)
- Energetic basis of brain activity: Implications for neuroimaging + (Robert G. Shulman)
- Fluctuation-dissipation relations in driven dissipative systems + (Yair Shokef)
- Nonequilibrium fluctuation theorems in the presence of local heating + (Punyabrata Pradhan)
- Exactly solvable model for driven dissipative systems + (Yair Srebro)
- An estimate of the total DNA in the biosphere + (Hanna K.E. Landenmark)
- Collective dynamics of 'small-world' networks + (Duncan J. Watts)
- Holevo's bound from a general quantum fluctuation theorem + (Dvir Kafri)
- Non-equilibrium spin-boson model: Counting statistics and the heat exchange fluctuation theorem + (Lena Nicolin)
- Observation of non-Hermitian degeneracies in a chaotic exciton-polariton billiard + (T. Gao)
- Dynamical ensembles in nonequilibrium statistical mechanics + (E. G.D. Cohen)
- Inertial effects in nonequilibrium work fluctuations by a path integral approach + (E. G.D. Cohen)
- Extension of the fluctuation theorem + (E. G.D. Cohen)
- Steady-state work fluctuations of a dragged particle under external and thermal noise + (E. G.D. Cohen)
- Nonequilibrium steady state thermodynamics and fluctuations for stochastic systems + (E. G.D. Cohen)
- Stationary and transient work-fluctuation theorems for a dragged Brownian particle + (E. G.D. Cohen)
- Extended heat-fluctuation theorems for a system with deterministic and stochastic forces + (E. G.D. Cohen)
- Probability of second law violations in shearing steady states + (E. G.D. Cohen)
- The stochastic chemomechanics of the F1-ATPase molecular motor + (P. Gaspard)
- Nanoscale heat engine beyond the carnot limit + (J. Roßnagel)
- Quantum fluctuation theorems in the strong damping limit + (S. Deffner)
- Physics of chemoreception + (H. C. Berg)
- Fluctuations and irreversibility: An experimental demonstration of a second-law-like theorem using a colloidal particle held in an optical trap + (D. M. Carberry)
- Experimental study of the fluctuation theorem in a nonequilibrium steady state + (G. M. Wang)
- Dynamical reconnection and stability constraints on cortical network architecture + (P. A. Robinson)
- A method for measuring cerebral glucose metabolism in vivo by 13C-NMR spectroscopy + (David M. Cohen)
- Quantum equivalent of the Carnot cycle + (J. E. Geusic)
- Predictive information and explorative behavior of autonomous robots + (N. Ay)
- Correlated morphometric and biochemical studies on the liver cell. I. Morphometric model, stereologic methods, and normal morphometric data for rat liver. + (E. R. Weibel)
- Injected power and entropy flow in a heated granular gas + (P. Visco)
- Quantum probabilities from quantum entanglement: Experimentally unpacking the Born rule + (Jérémie Harris)
- Performance assessment of multiobjective optimizers: An analysis and review + (Eckart Zitzler)
- Neurophysiological architecture of functional magnetic resonance images of human brain + (Raymond Salvador)
- Age-related changes in modular organization of human brain functional networks + (David Meunier)
- Efficiency and cost of economical brain functional networks + (Sophie Achard)
- Small-world brain networks + (Danielle Smith Bassett)
- Specific subtypes of cortical GABA interneurons contribute to the neurovascular coupling response to basal forebrain stimulation + (Ara Kocharyan)
- Structure and stability of certain chemical networks and applications to the kinetic proofreading model of T-cell receptor signal transduction + (Eduardo D. Sontag)
- Microstructure of a spatial map in the entorhinal cortex + (Torkel Hafting)
- The entorhinal grid map is discretized + (Hanne Stensola)
- Thermodynamic constraints for biochemical networks + (Daniel A. Beard)
- An informational process based on reversible universal cellular automata + (Edward Fredkin)
- Conservative logic + (Edward Fredkin)
- Far-from-equilibrium measurements of thermodynamic length + (Edward H. Feng)
- Length of time's arrow + (Edward H. Feng)
- The ManyBugs and IntroClass Benchmarks for Automated Repair of C Programs + (Claire Le Goues)
- Disrupted axonal fiber connectivity in schizophrenia + (Andrew Zalesky)
- Modular and hierarchically modular organization of brain networks + (David Meunier)
- Schizophrenia, neuroimaging and connectomics + (Alex Fornito)
- What can spontaneous fluctuations of the blood oxygenationlevel-dependent signal tell us about psychiatric disorders? + (Alex Fornito)
- Efficient physical embedding of topologically complex information processing networks in brains and computer circuits + (Danielle S. Bassett)
- Human brain networks in health and disease + (Danielle S. Bassett)
- The anatomical distance of functional connections predicts brain network topology in health and schizophrenia + (Aaron F. Alexander-Bloch)
- Image quality assessment: From error visibility to structural similarity + (Zhou Wang)
- Programmable and autonomous computing machine made of biomolecules + (Yaakov Benenson)
- Recovery of state-specific potential of molecular motor from single-molecule trajectory + (Shoichi Toyabe)
- Nonequilibrium energetics of a single F1-ATPase molecule + (Shoichi Toyabe)
- Experimental demonstration of information-to-energy conversion and validation of the generalized Jarzynski equality + (Shoichi Toyabe)
- A Simple Model of Optimal Population Coding for Sensory Systems + (Eizaburo Doi)
- Progressive methylation of ageing histones by Dot1 functions as a timer + (Dirk De Vos)
- Noise stability of functions with low influences: Invariance and optimality + (Elchanan Mossel)
- RAS oncogenes: Weaving a tumorigenic web + (Yuliya Pylayeva-Gupta)
- TrxG and PcG proteins but not methylated histones remain associated with DNA through replication + (Svetlana Petruk)
- The scaling of white matter to gray matter in cerebellum and neocortex + (Eliot C. Bush)
- The entropy and efficiency of a molecular motor model + (Eliran Boksenbojm)
- Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator + (Maximilian Weitz)
- Self-organization and entropy reduction in a living cell + (Paul C.W. Davies)
- Coding of Odors by a Receptor Repertoire + (Elissa A. Hallem)
- The folding cooperativity of a protein is controlled by its chain topology + (Elizabeth A. Shank)
- Yeast HOG1 MAP kinase cascade is regulated by a multistep phosphorelay mechanism in the SLN1-YPD1-SSK1 'two-component' osmosensor + (Francesc Posas)
- Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements + (Anshul Kundaje)
- Ribosome kinetics and aa-tRNA competition determine rate and fidelity of peptide synthesis + (Aaron Fluitt)
- Free energy for protein folding from nonequilibrium simulations using the Jarzynski equality + (Daniel K. West)
- Quantum Simulation of Single-Qubit Thermometry Using Linear Optics + (Luca Mancino)
- Instrumentation applications of multibit random-data representation + (Emil M. Petriu)
- Chemical Paleogenetics. Molecular "Restoration Studies" of Extinct Forms of Life. + (Linus Pauling)
- Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification + (Minjia Tan)
- Building programmable jigsaw puzzles with RNA + (Arkadiusz Chworos)
- Biochemical and pharmacological control of the multiplicity of coupling at G-protein-coupled receptors + (Emmanuel Hermans)
- Near-optimal signal recovery from random projections: Universal encoding strategies? + (Emmanuel J. Candes)
- Fluctuations of internal energy flow in a vibrated granular gas + (Andrea Puglisi)
- Dynamics of a tracer granular particle as a nonequilibrium Markov process + (Andrea Puglisi)
- Human neoteny revisited: The case of synaptic plasticity + (Enric Bufill)
- Chromatin organization marks exon-intron structure + (Schraga Schwartz)
- High nucleosome occupancy is encoded at human regulatory sequences + (Desiree Tillo)
- Optimality and evolutionary tuning of the expression level of a protein + (Erez Dekel)
- Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain + (Andrew J. Bannister)
- Argonaute proteins couple chromatin silencing to alternative splicing + (Maya Ameyar-Zazoua)
- Entropy-based characterizations of the observable dependence of the fluctuation-dissipation temperature + (Kirsten Martens)
- Intensive thermodynamic parameters in nonequilibrium systems + (Eric Bertin)
- Dependence of the fluctuation-Dissipation temperature on the choice of observable + (Kirsten Martens)
- Tolerating Soft Errors in Processor Cores Using CLEAR (Cross-Layer Exploration for Architecting Resilience) + (Eric Cheng)
- Reprint of: Digital and spatial knowledge management in urban governance: Emerging issues in India, Brazil, South Africa, and Peru + (Isa Baud)
- Probing the Limits to Positional Information + (Thomas Gregor)
- Fluctuations of energy flux in a simple dissipative out-of-equilibrium system + (Claudio Falcón)
- Seflab: A lab for measuring software energy footprints + (Miguel A. Ferreira)
- Energy flows in low-entropy complex systems + (Eric J. Chaisson)
- Why do female primates have such long lifespans and so few babies? or Life in the slow lane + (Eric L. Charnov)
- Drivers of bacterial maintenance and minimal energy requirements + (Peter M. van Bodegom)
- Experimental verification of Landauer's principle linking information and thermodynamics + (Antoine Bérut)
- Memory erasure in small systems + (Raoul Dillenschneider)
- Nonequilibrium thermodynamic analysis of squeezing + (Fernando Galve)
- Fluctuation theorems: Work is not an observable + (Peter Talkner)
- Motor-Driven Dynamics in Actin-Myosin Networks + (Loïc Le Goff)
- The work-Hamiltonian connection and the usefulness of the Jarzynski equality for free energy calculations + (Eric N. Zimanyi)
- Structural properties of the Caenorhabditis elegans neuronal network + (Lav R. Varshney)
- On r- and K-Selection + (Eric R. Pianka)
- An introduction to population protocols + (James Aspnes)
- Thermodynamics of natural selection III: Landauer’s principle in computation and chemistry + (Eric Smith)
- Thermodynamics of natural selection I: Energy flow and the limits on organization + (Eric Smith)
- Thermodynamics of natural selection II: Chemical Carnot cycles + (Eric Smith)
- Thermodynamics of natural selection III: Landauer's principle in computation and chemistry + (Eric Smith)
- Optimizing Google's warehouse scale computers: The NUMA experience + (Lingjia Tang)
- A 32-bit powerPC system-on-a-chip with support for dynamic voltage scaling and dynamic frequency scaling + (Kevin J. Nowka)
- The WUS homeobox-containing (WOX) protein family + (Eric van der Graaff)
- Optimal protocols and optimal transport in stochastic thermodynamics + (Erik Aurell)
- Boundary layers in stochastic thermodynamics + (Erik Aurell)
- Refined Second Law of Thermodynamics for Fast Random Processes + (Erik Aurell)
- Complex parameter landscape for a complex neuron model + (Pablo Achard)
- Cerebellar LTD and Pattern Recognition by Purkinje Cells + (Volker Steuber)
- Cerebellar Golgi cells in the rat: Receptive fields and timing of responses to facial stimulation + (Bart P. Vos)
- The lac repressor displays facilitated diffusion in living cells + (Petter Hammar)
- Dynamics and memory of heterochromatin in living cells + (Nathaniel A. Hathaway)
- Chromatin measurements reveal contributions of synthesis and decay to steady-state mRNA levels + (Sylvia C. Tippmann)
- Neural network computation with DNA strand displacement cascades + (Lulu Qian)
- Computation with finite stochastic chemical reaction networks + (David Soloveichik)
- DNA as a universal substrate for chemical kinetics (Extended Abstract) + (David Soloveichik)
- Enzyme-free nucleic acid logic circuits + (Georg Seelig)
- Enzyme-free nucleic acid dynamical systems + (Niranjan Srinivas)
- Construction of an in vitro bistable circuit from synthetic transcriptional switches + (Jongmin Kim)
- Control of DNA strand displacement kinetics using toehold exchange + (David Yu Zhang)
- Efficient turing-universal computation with DNA polymers + (Lulu Qian)
- Synthetic in vitro transcriptional oscillators + (Jongmin Kim)
- Verifying chemical reaction network implementations: A pathway decomposition approach + (Seung Woo Shin)
- Realization of a feedback controlled flashing ratchet + (Benjamin J. Lopez)
- Entropy production of cyclic population dynamics + (Benjamin Andrae)
- Brownian motion: A paradigm of soft matter and biological physics + (Erwin Frey)
- Extinction in neutrally stable stochastic Lotka-Volterra models + (Alexander Dobrinevski)
- Synthetic molecular motors and mechanical machines + (Euan R. Kay)
- A molecular information ratchet + (Viviana Serreli)
- An analytical solution to the kinetics of breakable filament assembly + (Christopher A. Waudby)
- One-component systems dominate signal transduction in prokaryotes + (Luke E. Ulrich)
- Distribution of oxygen tension on the surface of arterioles, capillaries and venules of brain cortex and in tissue in normoxia: An experimental study on rats + (Eugene Vovenko)
- Nonlinear response and fluctuation-dissipation relations + (Eugenio Lippiello)
- Off-equilibrium generalization of the fluctuation dissipation theorem for Ising spins and measurement of the linear response function + (Eugenio Lippiello)
- Fluctuation dissipation relations far from equilibrium + (Federico Corberi)
- Networks, dynamics, and modularity + (Evan A. Variano)
- Variable channel expression in identified single and electrically coupled neurons in different animals + (David J. Schulz)
- Variability, compensation and homeostasis in neuron and network function + (Eve Marder)
- ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity + (Matthew D. Young)
- Effective temperature of red-blood-cell membrane fluctuations + (Eyal Ben-Isaac)
- Gene expression of Caenorhabditis elegans neurons carries information on their synaptic connectivity + (Alon Kaufman)
- Nonequilibrium fluctuations in small systems: from physics to biology + (F 2008 Ritort)
- Nonequilibrium mechanics of active cytoskeletal networks + (Daisuke Mizuno)
- The mechanics and fluctuation spectrum of active gels + (Alex J. Levine)
- Generalised Einstein relation for hot Brownian motion + (D. Chakraborty)
- Estimate of the free energy difference in mechanical systems from work fluctuations: Experiments and models + (F. Douarche)
- An experimental test of the Jarzynski equality in a mechanical experiment + (F. Douarche)
- Work fluctuation theorems for harmonic oscillators + (F. Douarche)
- Stochasticity of gene products from transcriptional pulsing + (Srividya Iyer-Biswas)
- General mass action kinetics + (F. Horn)
- Necessary and sufficient conditions for complex balancing in chemical kinetics + (F. Horn)
- Information and maximum power in a feedback controlled Brownian ratchet + (M. Feito)
- Optimal operation of feedback flashing ratchets + (M. Feito)
- Closed-loop control strategy with improved current for a flashing ratchet + (L. Dinis)
- Information and flux in a feedback controlled Brownian ratchet + (F. J. Cao)
- Thermodynamics of feedback controlled systems + (F. J. Cao)
- Efficiency of a Carnot engine at maximum power output + (F. L. Curzon)
- Single-ensemble nonequilibrium path-sampling estimates of free energy differences + (F. Marty Ytreberg)
- Observation of non-Hermitian degeneracies in a chaotic exciton-polariton billiard + (T. Gao)
- Measuring the fluctuation-dissipation ratio in glassy systems with no perturbing field + (F. Ricci-Tersenghi)
- Single-photon detection by rod cells of the retina + (F. Rieke)
- Dynamic force spectroscopy of DNA hairpins: I. Force kinetics and free energy landscapes + (A. Mossa)
- Violation of the fluctuation-dissipation theorem in glassy systems: Basic notions and the numerical evidence + (A. Crisanti)
- Verification of the Crooks fluctuation theorem and recovery of RNA folding free energies + (D. Collin)
- Dynamic force spectroscopy of DNA hairpins: II. Irreversibility and dissipation + (M. Manosas)
- Nonequilibrium steady-state fluctuations in actively cooled resonators + (M. Bonaldi)
- Observation of the Kibble-Zurek scaling law for defect formation in ion crystals + (S. Ulm)
- Feed-forward loops and diamond motifs lead to tunable transmission of information in the frequency domain + (W. H. De Ronde)
- SRAM for error-tolerant applications with dynamic energy-quality management in 28 nm CMOS + (Fabio Frustaci)
- A Map of the Interactome Network of the Metazoan C. elegans + (Siming Li)
- Measurement of damping and temperature: Precision bounds in Gaussian dissipative channels + (Alex Monras)
- Transmission gate-based approximate adders for inexact computing + (Zhixi Yang)
- Energetic basis of brain activity: Implications for neuroimaging + (Robert G. Shulman)
- Correcting errors beyond the Guruswami-Sudan radius in polynomial time + (Farzad Parvaresh)
- A fluctuation theorem for non-equilibrium relaxational systems driven by external forces + (Francesco Zamponi)
- Holographic Second Laws of Black Hole Thermodynamics + (Alice Bernamonti)
- A generalized integral fluctuation theorem for general jump processes + (Fei Liu)
- Generalized integral fluctuation theorem for diffusion processes + (Fei Liu)
- Improving free-energy estimates from unidirectional work measurements: Theory and experiment + (Matteo Palassini)
- Bayesian estimates of free energies from nonequilibrium work data in the presence of instrument noise + (Paul Maragakis)
- Measurement of work in single-molecule pulling experiments + (Alessandro Mossa)
- Neurochemical organization of the macaque retina: Effect of TTX on levels and gene expression of cytochrome oxidase and nitric oxide synthase and on the immunoreactivity of Na+ K+ ATPase and NMDA receptor subunit I + (Margaret T.T. Wong-Riley)
- Optimizing the switching function for nonequilibrium free-energy calculations: An on-the-fly approach + (Gerrick E. Lindberg)
- Experimental validation of free-energy-landscape reconstruction from non-equilibrium single-molecule force spectroscopy measurements + (Amar Nath Gupta)
- Optimum performance analysis of Feynman's engine as cold and hot ratchets + (Lingen Chen)
- Finite time thermodynamic optimization or entropy generation minimization of energy systems + (Lingen Chen)
- Mutual information between input and output trajectories of biochemical networks + (Filipe Tostevin)
- The berg-purcell limit revisited + (Kazunari Kaizu)
- Effect of feedback on the fidelity of information transmission of time-varying signals + (Wiet Hendrik De Ronde)
- Visual DSD: A design and analysis tool for DNA strand displacement systems + (Matthew R. Lakin)
- Resonances arising from hydrodynamic memory in Brownian motion + (Thomas Franosch)
- Optimal potentials for temperature ratchets + (Florian Berger)
- Analyzing molecular reaction networks: From pathways to chemical organizations + (Christoph Kaleta)
- Is it possible to experimentally verify the fluctuation relation? A review of theoretical motivations and numerical evidence + (Francesco Zamponi)
- Functional brain networks develop from a "local to distributed" organization + (Damien A. Fair)
- Open problems on information and feedback controlled systems + (Francisco J. Cao)
- Szilard-machine-like features in a processive motor protein + (Martin Bier)
- Feedback control in a collective flashing ratchet + (Francisco J. Cao)
- Colloquium: The physics of Maxwell's demon and information + (Koji Maruyama)
- Maxwell's demon assisted thermodynamic cycle in superconducting quantum circuits + (H. T. Quan)
- Evidence for early life in Earth's oldest hydrothermal vent precipitates + (Matthew S. Dodd)
- TRNAdb 2009: Compilation of tRNA sequences and tRNA genes + (Frank Jühling)
- Energy transduction of isothermal ratchets: Generic aspects and specific examples close to and far from equilibrium + (Andrea Parmeggiani)
- Factor graphs and the sum-product algorithm + (Frank R. Kschischang)
- Local sites of activity-related glucose metabolism in rat olfactory bulb during olfactory stimulation + (Frank R. Sharp)
- Computed tomography-estimated specific gravity of noncontused brain areas as a marker of severity in human traumatic brain injury + (Vincent Degos)
- Some informational aspects of visual perception + (Fred Attneave)
- Patterns and mechanisms of Ancestral Histone protein inheritance in Budding yeast + (Marta Radman-Livaja)
- Growth processes in teeth distinguish modern humans from Homo erectus and earlier hominins + (Christopher Dean)
- A DNA-fuelled molecular machine made of DNA + (Bernard Yurke)
- One rule to grow them all: A general theory of neuronal branching and its practical application + (Hermann Cuntz)
- The minimal work cost of information processing + (Philippe Faist)
- General theory of thermal fluctuations in nonlinear systems + (G N Bochkov)
- The connectional organization of the cortico-thalamic system of the cat + (J. W. Scannell)
- Using information theory to search for co-evolving residues in proteins + (L. C. Martin)
- Finite-time erasing of information stored in fermionic bits + (Giovanni Diana)
- Self-regulating gene: An exact solution + (J. E.M. Hornos)
- Assessing the nonequilibrium thermodynamics in a quenched quantum many-body system via single projective measurements + (L. Fusco)
- Hydrodynamics and the fluctuation theorem + (M. Belushkin)
- Dynamical ensembles in nonequilibrium statistical mechanics + (G. Gallavotti)
- On anomalous diffusion and the out of equilibrium response function in one-dimensional models + (D. Villamaina)
- Irreversible dynamics of a massive intruder in dense granular fluids + (A. Sarracino)
- Fundamental aspects of protein - Protein association kinetics + (G. Schreiber)
- Work fluctuations in a nematic liquid crystal + (S. Joubaud)
- Fast-growth thermodynamic integration: Error and efficiency analysis + (G. Hummer)
- Invariant visual representation by single neurons in the human brain + (R. Quian Quiroga)
- Fluctuation theorems for stochastic dynamics + (R. J. Harris)
- Nonlinear fluctuation-dissipation relations and stochastic models in nonequilibrium thermodynamics. II. Kinetic potential and variational principles for nonlinear irreversible processes + (G. N. Bochkov)
- Nonlinear fluctuation-dissipation relations and stochastic models in nonequilibrium thermodynamics. I. Generalized fluctuation-dissipation theorem + (G. N. Bochkov)
- Transformation properties of entropy production + (G. Nicolis)
- A master equation description of local fluctuations + (M. Malek-Mansour)
- Small-world networks and functional connectivity in Alzheimer's disease + (C. J. Stam)
- The Stokes efficiency for molecular motors and its applications + (Hongyun Wang)
- The physics of molecular motors + (C. Bustamante)
- Probability of second law violations in shearing steady states + (Denis J. Evans)
- Work and heat probability distribution of an optically driven Brownian particle: Theory and experiments + (A. Imparato)
- Experimental test of the Gallavotti-Cohen fluctuation theorem in turbulent flows + (S. Ciliberto)
- Fluctuation theorem for a double quantum dot coupled to a point-contact electrometer + (D. Golubev)
- Principles of control thermodynamics + (P. Salamon)
- Tagged particle in a sheared suspension: Effective temperature determines density distribution in a slowly varying external potential beyond linear response + (G. Szamel)
- Information integration: Its relevance to brain function and consciousness + (G. Tononi)
- Intraglomerular inhibition: Signaling mechanisms of an olfactory microcircuit + (Gabe J. Murphy)
- Global and local thermometry schemes in coupled quantum systems + (Steve Campbell)
- Thermodynamics of trajectories and local fluctuation theorems for harmonic quantum networks + (Simon Pigeon)
- The energy–speed–accuracy trade-off in sensory adaptation + (Ganhui Lan)
- The energy-speed-accuracy trade-off in sensory adaptation + (Ganhui Lan)
- Adapt locally and act globally: Strategy to maintain high chemoreceptor sensitivity in complex environments + (Ganhui Lan)
- Age-related alterations in the modular organization of structural cortical network by using cortical thickness from MRI + (Zhang J. Chen)
- Construction and optimization of a quantum analog of the Carnot cycle + (Gaoyang Xiao)
- Histone modifications at human enhancers reflect global cell-type-specific gene expression + (Nathaniel D. Heintzman)
- Silencing of transgene transcription precedes methylation of promoter DNA and histone H3 lysine 9 + (Vesco Mutskov)
- Experimental demonstration of a latch in clocked quantum-dot cellular automata + (Alexei O. Orlov)
- Time-frequency dynamics of resting-state brain connectivity measured with fMRI + (Catie Chang)