Santa Fe Institute Collaboration Platform

Thermodynamics of Computation

Template:Reference Material Query

From Thermodynamics of Computation
Revision as of 20:41, May 15, 2018 by Wikiworks (talk | contribs) (use templates for table construction - support author lookup)
  Author name Source name Year Keyword Citation count Page views
Elements of Information Theory Thomas M. Cover, Joy A. Thomas Elements of Information Theory 2005 28,916 30
Collective dynamics of 'small-world' networks Duncan J. Watts, Steven H. Strogatz Nature 1998 27,566 4
A fast and elitist multiobjective genetic algorithm: NSGA-II Kalyanmoy Deb, Amrit Pratap, Sameer Agarwal, T. Meyarivan IEEE Transactions on Evolutionary Computation 2002 Constraint handling, Elitism, Genetic algorithms, Multicriterion decision making, Multiobjective optimization, Pareto-optimal solutions 26,772 9
Image quality assessment: From error visibility to structural similarity Zhou Wang, Alan Conrad Bovik, Hamid Rahim Sheikh, Eero P. Simoncelli IEEE Transactions on Image Processing 2004 Error sensitivity, Human visual system (HVS), Image coding, Image quality assessment, JPEG, JPEG2000, Perceptual quality, Structural information, Structural similarity (SSIM) 23,582 6
Translating the histone code T. Jenuwein, C. D. Allis Science 2001 7,178 5
The brain's default network: Anatomy, function, and relevance to disease Randy L. Buckner, Jessica R. Andrews-Hanna, Daniel L. Schacter Annals of the New York Academy of Sciences 2008 Alzheimer, Default mode, Default network, Default system, Hippocampus, Memory, PET, Schizophrenia, fMRI 6,106 8
On the nature of allosteric transitions: A plausible model Jacque Monod, Jeffries Wyman, Jean Pierre Changeux Journal of Molecular Biology 1965 5,885 7
Complex network measures of brain connectivity: Uses and interpretations Mikail Rubinov, Olaf Sporns NeuroImage 2010 5,606 9
Distributed hierarchical processing in the primate cerebral cortex Daniel J. Felleman, David C. Van Essen Cerebral Cortex 1991 5,103 5
Near-optimal signal recovery from random projections: Universal encoding strategies? Emmanuel J. Candes, Terence Tao IEEE Transactions on Information Theory 2006 Concentration of measure, Convex optimization, Duality in optimization, Linear programming, Random matrices, Random projections, Signal recovery, Singular values of random matrices, Sparsity, Trigonometric expansions, Uncertainty principle 5,004 0
Factor graphs and the sum-product algorithm Frank R. Kschischang, Brendan J. Frey, Hans Andrea Loeliger IEEE Transactions on Information Theory 2001 Belief propagation, Factor graphs, Fast Fourier transform, Forward/backward algorithm, Graphical models, Iterative decoding, Kalman filtering, Marginalization, Sum-product algorithm, Tanner graphs, Viterbi algorithm 4,387 4
Neurophysiological investigation of the basis of the fMRI signal N. K. Logothetis, J. Pauls, M. Augath, T. Trinath, A. Oeltermann Nature 2001 4,384 1
Irreversibility and Heat Generation in the Computing Process Rolf Landauer 1961 4,256 44
Mammalian MAP kinase signalling cascades L. Chang, M. Karin Nature 2001 4,146 2
Spurious but systematic correlations in functional connectivity MRI networks arise from subject motion Jonathan D. Power, Kelly A. Barnes, Abraham Z. Snyder, Bradley L. Schlaggar, Steven E. Petersen NeuroImage 2012 Artifact, FMRI, FcMRI, Motion, Movement, Network, Noise, Resting state 4,056 2
A general method for numerically simulating the stochastic time evolution of coupled chemical reactions Daniel T. Gillespie Journal of Computational Physics 1976 3,851 11
Real spectra in non-hermitian hamiltonians having PT symmetry Carl M. Bender, Stefan Boettcher Physical Review Letters 1998 3,725 2
Nonequilibrium equality for free energy differences C. Jarzynski Physical Review Letters 1997 3,183 6
A synthetic oscillatory network of transcriptional regulators Michael B. Elowitz, Stanislas Leibier Nature 2000 3,079 3
Topology of cosmic domains and strings T. W.B. Kibble Journal of Physics A: General Physics 1976 3,079 11
Mapping the structural core of human cerebral cortex Patric Hagmann, Leila Cammoun, Xavier Gigandet, Reto Meuli, Christopher J. Honey, J. Van Wedeen, Olaf Sporns PLoS Biology 2008 2,694 1
Earth mover's distance as a metric for image retrieval Yossi Rubner, Carlo Tomasi, Leonidas J. Guibas International Journal of Computer Vision 2000 2,608 1
Performance assessment of multiobjective optimizers: An analysis and review Eckart Zitzler, Lothar Thiele, Marco Laumanns, Carlos M. Fonseca, Viviane Grunert Da Fonseca IEEE Transactions on Evolutionary Computation 2003 Evolutionary algorithms, Multiobjective optimization, Performance assessment, Quality indicator 2,599 1
Broken symmetries and the masses of gauge bosons Peter W. Higgs Physical Review Letters 1964 2,520 2
Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information Michael Zuker, Patrick Stiegler Nucleic Acids Research 1981 2,509 6
A new polynomial-time algorithm for linear programming N. Karmarkar Combinatorica 1984 AMS subject classification (1980): 90C05 2,501 8
Clinical longitudinal standards for height, weight, height velocity, weight velocity, and stages of puberty J. M. Tanner, R. H. Whitehouse Archives of Disease in Childhood 1976 2,473 1
Decoherence, einselection, and the quantum origins of the classical Wojciech Hubert Zurek Reviews of Modern Physics 2003 2,432 6
Selforganization of matter and the evolution of biological macromolecules Manfred Eigen Die Naturwissenschaften 1971 2,364 9
Sparse coding with an overcomplete basis set: A strategy employed by V1? Bruno A. Olshausen, David J. Field Vision Research 1997 Coding V1, Gabor-wavelet, Natural images 2,350 0
Observation of parity-time symmetry in optics Christian E. Rüter, Konstantinos G. Makris, Ramy El-Ganainy, Demetrios N. Christodoulides, Mordechai Segev, Detlef Kip Nature Physics 2010 2,205 0
Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome Nathaniel D. Heintzman, Rhona K. Stuart, Gary Hon, Yutao Fu, Christina W. Ching, R. David Hawkins, Leah O. Barrera, Sara Van Calcar, Chunxu Qu, Keith A. Ching, Wei Wang, Zhiping Weng, Roland D. Green, Gregory E. Crawford, Bing Ren Nature Genetics 2007 2,195 0
Synthetic molecular motors and mechanical machines Euan R. Kay, David A. Leigh, Francesco Zerbetto Angewandte Chemie - International Edition 2007 Molecular devices, Nanotechnology, Noncovalent interactions, Supramolecular chemistry 2,145 5
Zur Quantentheorie der Molekeln M. Born, R. Oppenheimer Annalen der Physik 1927 2,136 3
Microstructure of a spatial map in the entorhinal cortex Torkel Hafting, Marianne Fyhn, Sturla Molden, May Britt Moser, Edvard I. Moser Nature 2005 2,120 2
Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins M. Lachner, D. O'Carroll, S. Rea, K. Mechtler, T. Jenuwein Nature 2001 2,068 1
Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain Andrew J. Bannister, Philip Zegerman, Janet F. Partridge, Eric A. Miska, Jean O. Thomas, Robin C. Allshire, Tony Kouzarides Nature 2001 2,052 0
What we can do and what we cannot do with fMRI Nikos K. Logothetis Nature 2008 2,005 0
Brownian motors: Noisy transport far from equilibrium Peter Reimann Physics Report 2002 Brownian motion, Molecular motor, Nonequilibrium process, Periodic potential, Ratchet, Symmetry breaking, Transport 1,980 5
Efficiency of a Carnot engine at maximum power output F. L. Curzon, B. Ahlborn American Journal of Physics 1975 1,818 0
The human connectome: A structural description of the human brain Olaf Sporns, Giulio Tononi, Rolf Kötter PLoS Computational Biology 2005 1,793 2
Some informational aspects of visual perception Fred Attneave Psychological Review 1954 &, ASPECTS, INFORMATION, INFORMATION THEORY, PERCEPTION, VISION, VISUAL, VISUAL PERCEPTION 1,725 0
Functional nucleic acid sensors Juewen Liu, Zehui Cao, Yi Lu Chemical Reviews 2009 1,646 3
Histone modifications at human enhancers reflect global cell-type-specific gene expression Nathaniel D. Heintzman, Gary C. Hon, R. David Hawkins, Pouya Kheradpour, Alexander Stark, Lindsey F. Harp, Zhen Ye, Leonard K. Lee, Rhona K. Stuart, Christina W. Ching, Keith A. Ching, Jessica E. Antosiewicz-Bourget, Hui Liu, Xinmin Zhang, Roland D. Green, Victor V. Lobanenkov, Ron Stewart, James A. Thomson, Gregory E. Crawford, Manolis Kellis, Bing Ren Nature 2009 1,640 0
A DNA-fuelled molecular machine made of DNA Bernard Yurke, Andrew J. Turberfield, Allen P. Mills, Friedrich C. Simmel, Jennifer L. Neumann Nature 2000 1,619 38
Conservative logic Edward Fredkin, Tommaso Toffoli International Journal of Theoretical Physics 1982 1,577 6
Small-world brain networks Danielle Smith Bassett, Ed Bullmore Neuroscientist 2006 Functional magnetic resonance imaging, Graph theory, Human brain functional networks, Small-world network 1,534 0
Efficiency and cost of economical brain functional networks Sophie Achard, Ed Bullmore PLoS Computational Biology 2007 1,526 0
Entropy production fluctuation theorem and the nonequilibrium work relation for free energy differences Gavin Crooks Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 1999 1,519 5
The 'independent components' of natural scenes are edge filters Anthony J. Bell, Terrence J. Sejnowski Vision Research 1997 Independent components, Information theory, Neural network learning 1,469 1
Stochastic thermodynamics, fluctuation theorems and molecular machines Udo Seifert Reports on Progress in Physics 2012 1,467 43
Organization, development and function of complex brain networks Olaf Sporns, Dante R. Chialvo, Marcus Kaiser, Claus C. Hilgetag Trends in Cognitive Sciences 2004 1,425 5
Towards a cognitive neuroscience of consciousness: Basic evidence and a workspace framework Stanislas Dehaene, Lionel Naccache Cognition 2001 Attention, Awareness, Consciousness, Priming 1,395 0
Chemotaxis in Escherichia coli analysed by three-dimensional tracking Howard C. Berg, Douglas A. Brown Nature 1972 1,384 15
A Map of the Interactome Network of the Metazoan C. elegans Siming Li, Christopher M. Armstrong, Nicolas Bertin, Hui Ge, Stuart Milstein, Mike Boxem, Pierre Olivier Vidalain, Jing Dong J. Han, Alban Chesneau, Tong Hao, Debra S. Goldberg, Ning Li, Monica Martinez, Jean François Rual, Philippe Lamesch, Lai Xu, Muneesh Tewari, Sharyl L. Wong, Lan V. Zhang, Gabriel F. Berriz, Laurent Jacotot, Philippe Vaglio, Jérôme Reboul, Tomoko Hirozane-Kishikawa, Qianru Li, Harrison W. Gabel, Ahmed Elewa, Bridget Baumgartner, Debra J. Rose, Haiyuan Yu, Stephanie Bosak, Reynaldo Sequerra, Andrew Fraser, Susan E. Mango, William M. Saxton, Susan Strome, Sander v. Van Den Heuvel, Fabio Piano, Jean Vandenhaute, Claude Sardet, Mark Gerstein, Lynn Doucette-Stamm, Kristin C. Gunsalus, J. Wade Harper, Michael E. Cusick, Frederick P. Roth, David E. Hill, Marc Vidal Science 2004 1,353 1
Response and habituation of the human amygdala during visual processing of facial expression Hans C. Breiter, Nancy L. Etcoff, Paul J. Whalen, William A. Kennedy, Scott L. Rauch, Randy L. Buckner, Monica M. Strauss, Steven E. Hyman, Bruce R. Rosen Neuron 1996 1,337 0
Physics of chemoreception H. C. Berg, E. M. Purcell Biophysical Journal 1977 1,270 0
Dynamical ensembles in nonequilibrium statistical mechanics G. Gallavotti, E. G.D. Cohen Physical Review Letters 1995 1,261 0
Probability of second law violations in shearing steady states Denis J. Evans, G. P. Morriss, E. G.D. Cohen Physical Review Letters 1993 1,232 3
A tension-based theory of morphogenesis and compact wiring in the central nervous system David C. Van Essen Nature 1997 1,186 11
Cosmological experiments in superfluid helium? W. H. Zurek Nature 1985 1,164 0
Network modelling methods for FMRI Stephen M. Smith, Karla L. Miller, Gholamreza Salimi-Khorshidi, Matthew Webster, Christian F. Beckmann, Thomas E. Nichols, Joseph D. Ramsey, Mark W. Woolrich NeuroImage 2011 Causality, FMRI, Network modelling 1,142 0
Fluctuations and irreversible processes L. Onsager, S. MacHlup Physical Review 1953 1,123 0
Experimental and Theoretical Approaches to Conscious Processing Stanislas Dehaene, Jean Pierre Changeux Neuron 2011 1,118 7
Complex Extension of Quantum Mechanics Carl M. Bender, Dorje C. Brody, Hugh F. Jones Physical Review Letters 2002 1,108 3
Bayesian integration in sensorimotor learning Konrad P. Körding, Daniel M. Wolpert Nature 2004 1,090 0
Making molecular machines work Wesley R. Browne, Ben L. Feringa Nature Nanotechnology 2006 1,089 1
Robustness in simple biochemical networks N. Barkai, S. Leibler Nature 1997 1,079 0
Optimization, approximation, and complexity classes Christos H. Papadimitriou, Mihalis Yannakakis Journal of Computer and System Sciences 1991 1,069 0
Time-frequency dynamics of resting-state brain connectivity measured with fMRI Catie Chang, Gary H. Glover NeuroImage 2010 Default mode network, Dynamics, Functional connectivity, Functional magnetic resonance imaging, Negative correlations, Networks, Nonstationarity, Resting state, Spontaneous activity, Wavelets 1,064 8
The thermodynamics of computation-a review Charles H. Bennett International Journal of Theoretical Physics 1982 1,058 30
Dynamic DNA nanotechnology using strand-displacement reactions David Yu Zhang, Georg Seelig Nature Chemistry 2011 1,044 5
RAS oncogenes: Weaving a tumorigenic web Yuliya Pylayeva-Gupta, Elda Grabocka, Dafna Bar-Sagi Nature Reviews Cancer 2011 1,035 3
Enzyme-free nucleic acid logic circuits Georg Seelig, David Soloveichik, David Yu Zhang, Erik Winfree Science 2006 1,025 6
Invariant visual representation by single neurons in the human brain R. Quian Quiroga, L. Reddy, G. Kreiman, C. Koch, I. Fried Nature 2005 1,003 0
Information, Physics, and Computation Marc Mézard, Andrea Montanari Information, Physics, and Computation 2009 Belief propagation, Cavity method, Constraint satisfaction, Density evolution, Error correcting codes, Message passing, Phase transition, Satisfiability, Spin glasses, Survey propagation 998 32
Identification of 67 histone marks and histone lysine crotonylation as a new type of histone modification Minjia Tan, Hao Luo, Sangkyu Lee, Fulai Jin, Jeong Soo Yang, Emilie Montellier, Thierry Buchou, Zhongyi Cheng, Sophie Rousseaux, Nisha Rajagopal, Zhike Lu, Zhen Ye, Qin Zhu, Joanna Wysocka, Yang Ye, Saadi Khochbin, Bing Ren, Yingming Zhao Cell 2011 977 0
Functional brain networks develop from a "local to distributed" organization Damien A. Fair, Alexander L. Cohen, Jonathan D. Power, Jessica A. Church, Francis M. Miezin, Bradley L. Schlaggar, Steven E. Petersen, Nico U.F. Dosenbach PLoS Computational Biology 2009 977 0
Superfamilies of Evolved and Designed Networks Ron Milo, Shalev Itzkovitz, Nadav Kashtan, Reuven Levitt, Shai Shen-Orr, Inbal Ayzenshtat, Michal Sheffer, Uri Alon Science 2004 968 0
Programming biomolecular self-assembly pathways Peng Yin, Harry M.T. Choi, Colby R. Calvert, Niles A. Pierce Nature 2008 963 1
The large deviation approach to statistical mechanics Hugo Touchette Physics Reports 2009 961 10
Summing up the noise in gene networks Johan Paulsson Nature 2004 959 1
Equilibrium free-energy differences from nonequilibrium measurements: A master-equation approach C. Jarzynski Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 1997 946 5
Neurophysiological architecture of functional magnetic resonance images of human brain Raymond Salvador, John Suckling, Martin R. Coleman, John D. Pickard, David Menon, Ed Bullmore Cerebral Cortex 2005 Connectivity, Multivariate, Network, Scaling, Symmetry, Systems 944 0
A general model for the structure and allometry of plant vascular systems Geoffrey B. West, James H. Brown, Brian J. Enquist Nature 1999 943 0
Small-world networks and functional connectivity in Alzheimer's disease C. J. Stam, B. F. Jones, G. Nolte, M. Breakspear, Ph Scheltens Cerebral Cortex 2007 Alzheimer's disease, Complexity, EEG, Small-world network, Synchronization 931 0
Ramanujan graphs A. Lubotzky, R. Phillips, P. Sarnak Combinatorica 1988 AMS subject classification (1980): 05C35 898 7
Entropy production along a stochastic trajectory and an integral fluctuation theorem Udo Seifert Physical Review Letters 2005 878 14
Equilibrium information from nonequilibrium measurements in an experimental test of Jarzynski's equality Jan Liphardt, Sophie Dumont, Steven B. Smith, Ignacio Tinoco, Carlos Bustamante Science 2002 877 0
Phosphorylation and regulation of Raf by Akt (protein kinase B) Sven Zimmermann, Karin Moelling Science 1999 872 0
Correlated morphometric and biochemical studies on the liver cell. I. Morphometric model, stereologic methods, and normal morphometric data for rat liver. E. R. Weibel, W. Stäubli, H. R. Gnägi, F. A. Hess The Journal of cell biology 1969 856 0
Robustness in bacterial chemotaxis U. Alon, M. G. Surette, N. Barkai, S. Leibler Nature 1999 856 0
An information integration theory of consciousness Giulio Tononi BMC Neuroscience 2004 853 1
Sparse coding and decorrelation in primary visual cortex during natural vision William E. Vinje, Jack L. Gallant Science 2000 842 0
A (sub)graph isomorphism algorithm for matching large graphs Luigi P. Cordella, Pasquale Foggia, Carlo Sansone, Mario Vento IEEE Transactions on Pattern Analysis and Machine Intelligence 2004 833 10
The second wave of synthetic biology: From modules to systems Priscilla E.M. Purnick, Ron Weiss Nature Reviews Molecular Cell Biology 2009 811 5
Macromolecular crowding: An important but neglected aspect of the intracellular environment R. J. Ellis Current Opinion in Structural Biology 2001 797 2
Control of DNA strand displacement kinetics using toehold exchange David Yu Zhang, Erik Winfree Journal of the American Chemical Society 2009 793 4
Disrupted small-world networks in schizophrenia Yong Liu, Meng Liang, Yuan Zhou, Yong He, Yihui Hao, Ming Song, Chunshui Yu, Haihong Liu, Zhening Liu, Tianzi Jiang Brain 2008 Brain functional networks, Efficient small-world, Functional connectivity, Resting-state fMRI, Schizophrenia 789 2
The structure and function of the homeodomain Matthew P. Scott, John W. Tamkun, George W. Hartzell BBA - Reviews on Cancer 1989 780 0
Quantum mechanical computers Richard P. Feynman Foundations of Physics 1986 774 4
Uber die Entropieverminderung in einem thermodynamischen System bei Eingriffen intelligenter Wesen L. Szilard Zeitschrift für Physik 1929 773 2
The fundamental plan of the retina R. H. Masland Nature Neuroscience 2001 772 2
Genome evolution and adaptation in a long-term experiment with Escherichia coli Jeffrey E. Barrick, Dong Su Yu, Sung Ho Yoon, Haeyoung Jeong, Tae Kwang Oh, Dominique Schneider, Richard E. Lenski, Jihyun F. Kim Nature 2009 765 1
Identification and classification of hubs in brain networks Olaf Sporns, Christopher J. Honey, Rolf Kötter PLoS ONE 2007 760 0
Finite time thermodynamic optimization or entropy generation minimization of energy systems Lingen Chen, Chih Wu, Fengrui Sun Journal of Non-Equilibrium Thermodynamics 1999 760 3
Role of the polycomb protein EED in the propagation of repressive histone marks Raphael Margueron, Neil Justin, Katsuhito Ohno, Miriam L. Sharpe, Jinsook Son, William J. Drury, Philipp Voigt, Stephen R. Martin, William R. Taylor, Valeria De Marco, Vincenzo Pirrotta, Danny Reinberg, Steven J. Gamblin Nature 2009 755 0
Self-Organization in a Perceptual Network Ralph Linsker Computer 1988 752 4
Exciton-polariton Bose-Einstein condensation Hui Deng, Hartmut Haug, Yoshihisa Yamamoto Reviews of Modern Physics 2010 743 2
A general model for ontogenetic growth Geoffrey B. West, James H. Brown, Brian J. Enquist Nature 2001 740 1
Coding of Odors by a Receptor Repertoire Elissa A. Hallem, John R. Carlson Cell 2006 739 1
Path-ensemble averages in systems driven far from equilibrium Gavin Crooks Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 2000 739 4
Verification of the Crooks fluctuation theorem and recovery of RNA folding free energies D. Collin, F. Ritort, C. Jarzynski, S. B. Smith, I. Tinoco, C. Bustamante Nature 2005 737 1
An analytical solution to the kinetics of breakable filament assembly Christopher A. Waudby, Glyn L. Devlin, Adriano Aguzzi, Michele Vendruscolo, Eugene M. Terentjev, Mark E. Welland, Christopher M. Dobson, Tuomas P.J. Knowles, Samuel I.A. Cohen Science 2009 731 0
Yeast HOG1 MAP kinase cascade is regulated by a multistep phosphorelay mechanism in the SLN1-YPD1-SSK1 'two-component' osmosensor Francesc Posas, Susannah M. Wurgler-Murphy, Tatsuya Maeda, Elizabeth A. Witten, Tran Cam Thai, Haruo Saito Cell 1996 722 0
A rigorous derivation of the chemical master equation Daniel T. Gillespie Physica A: Statistical Mechanics and its Applications 1992 719 11
Improved decoding of reed-solomon and algebraic-geometry codes Venkatesan Guruswami, Madhu Sudan IEEE Transactions on Information Theory 1999 Algebraic-geometry codes, Decoding algorithms, Error-correcting codes, List decoding, Polynomial time algorithms, Reed-solomon codes 718 1
Changes in brain weights during the span of human life: Relation of brain weights to body heights and body weights Anatole S. Dekaban, Doris Sadowsky Annals of Neurology 1978 716 34
Erratum: Quantum fluctuation relations: Foundations and applications (Reviews of Modern Physics) Michele Campisi, Peter Hänggi, Peter Talkner Reviews of Modern Physics 2011 716 0
The TAU parallel performance system Sameer S. Shende, Allen D. Malony International Journal of High Performance Computing Applications 2006 Analysis, Instrumentation, Measurement, Performance evaluation, TAU 708 0
Variability, compensation and homeostasis in neuron and network function Eve Marder, Jean Marc Goaillard Nature Reviews Neuroscience 2006 704 0
Energy flow, partial equilibration, and effective temperatures in systems with slow dynamics Leticia F. Cugliandolo, Jorge Kurchan, Luca Peliti Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 1997 704 1
Nucleosome positioning and gene regulation: Advances through genomics Cizhong Jiang, B. Franklin Pugh Nature Reviews Genetics 2009 696 2
Consciousness as integrated information: A provisional manifesto Giulio Tononi Biological Bulletin 2008 667 2
The olfactory bulb: Coding and processing of odor molecule information Kensaku Mori, Hiroshi Nagao, Yoshihiro Yoshihara Science 1999 661 0
The quiet revolution of numerical weather prediction Peter Bauer, Alan Thorpe, Gilbert Brunet Nature 2015 657 7
Structure and function of a human TAF(II)250 double bromodomain module Raymond H. Jacobson, Andreas G. Ladurner, David S. King, Robert Tjian Science 2000 648 0
The neural basis of functional brain imaging signals David Attwell, Costantino Iadecola Trends in Neurosciences 2002 643 1
Energy use constrains brain information processing Julia J. Harris, Renaud Jolivet, David Attwell Neuron 2012 642 8
Pushing the limits of lithography Takashi Ito, Shinji Okazaki Nature 2000 640 0
Network theory of microscopic and macroscopic behavior of master equation systems J. Schnakenberg Reviews of Modern Physics 1976 631 1
General mass action kinetics F. Horn, R. Jackson Archive for Rational Mechanics and Analysis 1972 629 0
The energetics of genome complexity Nick Lane, William Martin Nature 2010 627 0
Modular and hierarchically modular organization of brain networks David Meunier, Renaud Lambiotte, Edward T. Bullmore Frontiers in Neuroscience 2010 Cortex, Fractal, Graph, Near-decomposability, Partition 617 0
The cost of cortical computation Peter Lennie Current Biology 2003 616 1
Spontaneously emerging cortical representations of visual attributes Tal Kenet, Dmitri Bibitchkov, Misha Tsodyks, Amiram Grinvald, Amos Arieli Nature 2003 615 1
Nonequilibrium mechanics of active cytoskeletal networks Daisuke Mizuno, Catherine Tardin, C. F. Schmidt, F. C. MacKintosh Science 2007 614 0
Neural network computation with DNA strand displacement cascades Lulu Qian, Erik Winfree, Jehoshua Bruck Nature 2011 608 7
Communication in neuronal networks Simon B. Laughlin, Terrence J. Sejnowski Science 2003 604 0
Experimental verification of Landauer's principle linking information and thermodynamics Antoine Bérut, Artak Arakelyan, Artyom Petrosyan, Sergio Ciliberto, Raoul Dillenschneider, Eric Lutz Nature 2012 598 4
Approximate computing: An emerging paradigm for energy-efficient design Jie Han, Michael Orshansky Proceedings - 2013 18th IEEE European Test Symposium, ETS 2013 2013 adder, approximate computing, low-energy design, multiplier, probabilistic computing, stochastic computation 592 5
Neuroscience: Hemodynamic signals correlate tightly with synchronized gamma oscillations Jörn Niessing, Boris Ebisch, Kerstin E. Schmidt, Michael Niessing, Wolf Singer, Ralf A.W. Galuske Science 2005 589 1
The conscious access hypothesis: Origins and recent evidence Bernard J. Baars Trends in Cognitive Sciences 2002 584 5
Intrinsic Fluctuations within Cortical Systems Account for Intertrial Variability in Human Behavior Michael D. Fox, Abraham Z. Snyder, Justin L. Vincent, Marcus E. Raichle Neuron 2007 SYSBIO, SYSNEURO 583 0
Equilibrium microstates which generate second law violating steady states Denis J. Evans, Debra J. Searles Physical Review E 1994 583 2
Laser cooling of atoms D. J. Wineland, Wayne M. Itano Physical Review A 1979 583 0
Localization transitions in non-hermitian quantum mechanics Naomichi Hatano, David R. Nelson Physical Review Letters 1996 579 0
Defining Network Topologies that Can Achieve Biochemical Adaptation Wenzhe Ma, Ala Trusina, Hana El-Samad, Wendell A. Lim, Chao Tang Cell 2009 SYSBIO 577 1
A simple coding procedure enhances a neuron’s information capacity Simon Laughlin Zeitschrift fur Naturforschung - Section C Journal of Biosciences 1981 Contrast, Fly Eye, Information Theory, Neural Coding 576 8
RELATION BETWEEN PHYSIOLOGICAL FUNCTION AND ENERGY METABOLISM IN THE CENTRAL NERVOUS SYSTEM Louis Sokoloff Journal of Neurochemistry 1977 571 0
Development of large-scale functional brain networks in children Kaustubh Supekar, Mark Musen, Vinod Menon PLoS Biology 2009 570 0
Human brain networks in health and disease Danielle S. Bassett, Edward T. Bullmore Current Opinion in Neurology 2009 Graph, Modularity, Network, Small world, Wiring cost 569 2
Programmable and autonomous computing machine made of biomolecules Yaakov Benenson, Tamar Paz-Elizur, Rivka Adar, Ehud Keinan, Zvi Llvneh, Ehud Shapiro Nature 2001 563 6
The anatomy of memory: An interactive overview of the parahippocampal- hippocampal network N. M. Van Strien, M. P. Witter, N. L.M. Cappaert Nature Reviews Neuroscience 2009 562 5
RNA sequence analysis using covariance models Sean R. Eddy, Richard Durbin Nucleic Acids Research 1994 554 0
Ultimate physical limits to computation Seth Lloyd Nature 2000 549 12
Emergent complex neural dynamics Dante R. Chialvo Nature Physics 2010 548 6
Nucleosome organization in the Drosophila genome Travis N. Mavrich, Cizhong Jiang, Ilya P. Ioshikhes, Xiaoyong Li, Bryan J. Venters, Sara J. Zanton, Lynn P. Tomsho, Ji Qi, Robert L. Glaser, Stephan C. Schuster, David S. Gilmour, Istvan Albert, B. Franklin Pugh Nature 2008 536 0
Epigenetics in alternative pre-mRNA splicing Reini F. Luco, Mariano Allo, Ignacio E. Schor, Alberto R. Kornblihtt, Tom Misteli Cell 2011 532 2
Age-related changes in modular organization of human brain functional networks David Meunier, Sophie Achard, Alexa Morcom, Ed Bullmore NeuroImage 2009 Aging, Complex networks, Functional MRI, Modularity 532 0
TRNAdb 2009: Compilation of tRNA sequences and tRNA genes Frank Jühling, Mario Mörl, Roland K. Hartmann, Mathias Sprinzl, Joern Pütz, Peter Stadler Nucleic Acids Research 2009 524 1
Integration of quanta in cerebellar granule cells during sensory processing Paul Chadderton, Troy W. Margie, Michael Häusser Nature 2004 519 1
The intractability of resolution Armin Haken Theoretical Computer Science 1985 515 2
A model for transmission of the H3K27me3 epigenetic mark Klaus H. Hansen, Adrian P. Bracken, Diego Pasini, Nikolaj Dietrich, Simmi S. Gehani, Astrid Monrad, Juri Rappsilber, Mads Lerdrup, Kristian Helin Nature Cell Biology 2008 514 0
Olfactory network dynamics and the coding of multidimensional signals Gilles Laurent Nature Reviews Neuroscience 2002 512 3
Evolution of the brain and intelligence Gerhard Roth, Ursula Dicke Trends in Cognitive Sciences 2005 505 1
Hardness vs randomness Noam Nisan, Avi Wigderson Journal of Computer and System Sciences 1994 504 3
Steady-state thermodynamics of Langevin systems T. Hatano, S. Sasa Physical Review Letters 2001 502 0
Experimental demonstration of information-to-energy conversion and validation of the generalized Jarzynski equality Shoichi Toyabe, Takahiro Sagawa, Masahito Ueda, Eiro Muneyuki, Masaki Sano Nature Physics 2010 499 22
CNS energy metabolism as related to function Adelbert Ames Brain Research Reviews 2000 Adenylate kinase, Aerobic glycolysis, CNS, Calcium, Carbonic anhydrase, Creatine kinase, Energy metabolism 493 0
Optimality and evolutionary tuning of the expression level of a protein Erez Dekel, Uri Alon Nature 2005 492 8
Kinetic amplification of enzyme discrimination Jacques Ninio Biochimie 1975 491 2
Fundamental aspects of protein - Protein association kinetics G. Schreiber, G. Haran, H. X. Zhou Chemical Reviews 2009 486 3
The computer as a physical system: A microscopic quantum mechanical Hamiltonian model of computers as represented by Turing machines Paul Benioff Journal of Statistical Physics 1980 Coleman model approximation, Computer as a physical system, Schrödinger equation description of Turing machines, closed conservative system, microscopic Hamiltonian models of computers, quantum spin lattices 479 30
Of dreaming and wakefulness R. R. Llinás, D. Paré Neuroscience 1991 477 0
Channel noise in neurons John A. White, Jay T. Rubinstein, Alan R. Kay Trends in Neurosciences 2000 476 0
Chromatin structure and the inheritance of epigenetic information Raphaël Margueron, Danny Reinberg Nature Reviews Genetics 2010 474 0
Perceiving the epigenetic landscape through histone readers Catherine A. Musselman, Marie Eve Lalonde, Jacques Côté, Tatiana G. Kutateladze Nature Structural and Molecular Biology 2012 474 2
Non-equilibrium steady states: Fluctuations and large deviations of the density and of the current Bernard Derrida Journal of Statistical Mechanics: Theory and Experiment 2007 Current fluctuations, Driven diffusive systems (theory), Large deviations in non-equilibrium systems, Stationary states 474 0
Bacterial chemoreceptors: high-performance signaling in networked arrays Gerald L. Hazelbauer, Joseph J. Falke, John S. Parkinson Trends in Biochemical Sciences 2008 472 4
Schizophrenia, neuroimaging and connectomics Alex Fornito, Andrew Zalesky, Christos Pantelis, Edward T. Bullmore NeuroImage 2012 Complex, Cortex, DTI, FMRI, Resting state, Small world 472 1
Consensus paper: The cerebellum's role in movement and cognition Leonard F. Koziol, Deborah Budding, Nancy Andreasen, Stefano D'Arrigo, Sara Bulgheroni, Hiroshi Imamizu, Masao Ito, Mario Manto, Cherie Marvel, Krystal Parker, Giovanni Pezzulo, Narender Ramnani, Daria Riva, Jeremy Schmahmann, Larry Vandervert, Tadashi Yamazaki Cerebellum 2014 Cerebellum, Cognition, Cognitive, Executive function, Language, Motor, Movement, Neurodevelopment 465 3
Extracting work from a single heat bath via vanishing quantum coherence Marlan O. Scully, M. Suhail Zubairy, Girish S. Agarwal, Herbert Walther Science 2003 462 4
Probing the Limits to Positional Information Thomas Gregor, David W. Tank, Eric F. Wieschaus, William Bialek Cell 2007 DEVBIO 461 4
Speed and accuracy of olfactory discrimination in the rat Naoshige Uchida, Zachary F. Mainen Nature Neuroscience 2003 458 0
Central role of Drosophila SU(VAR)3-9 in histone H3-K9 methylation and heterochromatic gene silencing Gunnar Schotta, Anja Ebert, Veiko Krauss, Andreas Fischer, Jan Hoffmann, Stephen Rea, Thomas Jenuwein, Rainer Dorn, Gunter Reuter EMBO Journal 2002 Gene silencing, H3-K9 methylation, Heterochromatin, SU(VAR)3-9 457 0
Thermodynamics of information Juan M.R. Parrondo, Jordan M. Horowitz, Takahiro Sagawa Nature Physics 2015 454 57
Solution of a 20-variable 3-SAT problem on a DNA computer Ravinderjit S. Braich, Nickolas Chelyapov, Cliff Johnson, Paul W.K. Rothemund, Leonard Adleman Science 2002 447 1
Structural properties of the Caenorhabditis elegans neuronal network Lav R. Varshney, Beth L. Chen, Eric Paniagua, David H. Hall, Dmitri B. Chklovskii PLoS Computational Biology 2011 446 1
Uncovering intrinsic modular organization of spontaneous brain activity in humans Yong He, Jinhui Wang, Liang Wang, Zhang J. Chen, Chaogan Yan, Hong Yang, Hehan Tang, Chaozhe Zhu, Qiyong Gong, Yufeng Zang, Alan C. Evans PLoS ONE 2009 441 0
A molecular information ratchet Viviana Serreli, Chin Fa Lee, Euan R. Kay, David A. Leigh Nature 2007 438 2
Inhibitory postsynaptic potentials carry synchronized frequency information in active cortical networks Andrea Hasenstaub, Yousheng Shu, Bilal Haider, Udo Kraushaar, Alvaro Duque, David A. McCormick Neuron 2005 436 0
Probabilistic algorithm for testing primality Michael O. Rabin Journal of Number Theory 1980 434 1
Low-power digital signal processing using approximate adders Vaibhav Gupta, Debabrata Mohapatra, Anand Raghunathan, Kaushik Roy IEEE Transactions on Computer-Aided Design of Integrated Circuits and Systems 2013 Approximate computing, low power, mirror adder 433 12
Building programmable jigsaw puzzles with RNA Arkadiusz Chworos, Isil Severcan, Alexey Y. Koyfman, Patrick Weinkam, Emin Oroudjev, Helen G. Hansma, Luc Jaeger Science 2004 428 1
Genetic programming as a means for programming computers by natural selection John R. Koza Statistics and Computing 1994 Boolean 11-multiplexer, Boolean 11-parity, Genetic programming, crossover, econometric exchange equation, genetic algorithm, hierarchical automatic function definition, symbolic regression 428 2
Modelling dynamical processes in complex socio-technical systems Alessandro Vespignani Nature Physics 2012 427 5
Chromatin organization marks exon-intron structure Schraga Schwartz, Eran Meshorer, Gil Ast Nature Structural and Molecular Biology 2009 426 0
Brain anatomical network and intelligence Yonghui Li, Yong Liu, Jun Li, Wen Qin, Kuncheng Li, Chunshui Yu, Tianzi Jiang PLoS Computational Biology 2009 424 2
Molecular taxonomy of major neuronal classes in the adult mouse forebrain Ken Sugino, Chris M. Hempel, Mark N. Miller, Alexis M. Hattox, Peter Shapiro, Caizi Wu, Z. Josh Huang, Sacha B. Nelson Nature Neuroscience 2006 416 0
Fluctuation theorems: Work is not an observable Peter Talkner, Eric Lutz, Peter Hänggi Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2007 414 0
Nonoptimal component placement, but short processing paths, due to long-distance projections in neural systems Marcus Kaiser, Claus C. Hilgetag PLoS Computational Biology 2006 412 0
The evolutionary origin of complex features Richard E. Lenski, Charles Ofria, Robert T. Pennock, Christoph Adami Nature 2003 407 2
On the complexity of the parity argument and other inefficient proofs of existence Christos H. Papadimitriou Journal of Computer and System Sciences 1994 405 3
Probabilistic mapping and volume measurement of human primary auditory cortex J. Rademacher, P. Morosan, T. Schormann, A. Schleicher, C. Werner, H. J. Freund, K. Zilles NeuroImage 2001 Auditory cortex, Brain mapping, Cytoarchitecture, Human cerebral cortex, Image analysis 405 0
High-energy behavior in quantum field theory Steven Weinberg Physical Review 1960 402 5
Neurophysiology of the BOLD fMRI Signal in Awake Monkeys Nikos K. Logothetis, Jozien B.M. Goense Current Biology 2008 SYSNEURO 397 0
Cancer as a dysregulated epigenome allowing cellular growth advantage at the expense of the host Winston Timp, Andrew P. Feinberg Nature Reviews Cancer 2013 392 1
Low-Power Digital Systems Based on Adiabatic-Switching Principles William C. Athas, J. Svensson, Jeffrey G. Koller, Nestoras Tzartzanis, Ying Chin Chou IEEE Transactions on Very Large Scale Integration (VLSI) Systems 1994 Adiabatic amplification, adiabatic charging, adiabatic switching, low-power CMOS, reversible computation, switching energy reduction with preserved signal energies 392 1
Good practices in free-energy calculations Andrew Pohorille, Christopher Jarzynski, Christophe Chipot Journal of Physical Chemistry B 2010 388 11
Vertex cover might be hard to approximate to within 2 - ε Subhash Khot, Oded Regev Journal of Computer and System Sciences 2008 Hardness of approximation, Unique games conjecture, Vertex cover 386 0
The quantum open system as a model of the heat engine R. Alicki Journal of Physics A: General Physics 1979 381 4
The superfamily of heme-copper respiratory oxidases J. A. Garcia-Horsman, B. Barquera, J. Rumbley, J. Ma, R. B. Gennis Journal of Bacteriology 1994 379 0
Energetic basis of brain activity: Implications for neuroimaging Robert G. Shulman, Douglas L. Rothman, Kevin L. Behar, Fahmeed Hyder Trends in Neurosciences 2004 379 0
Approximate counting, uniform generation and rapidly mixing Markov chains Alistair Sinclair, Mark Jerrum Information and Computation 1989 376 0
Growth processes in teeth distinguish modern humans from Homo erectus and earlier hominins Christopher Dean, Meave G. Leakey, Donald Reid, Friedemann Schrenk, Gary T. Schwartz, Christopher Stringer, Alan Walker Nature 2001 372 0
Stochastic neural computation I: Computational elements Bradley D. Brown, Howard C. Card IEEE Transactions on Computers 2001 Computational elements, Pulsed neural networks, Stochastic arithmetic 368 12
Representation of odorants by receptor neuron input to the mouse olfactory bulb Matt Wachowiak, Lawrence B. Cohen Neuron 2001 367 0
The neural correlates of consciousness: An update Giulio Tononi, Christof Koch Annals of the New York Academy of Sciences 2008 Brain, Consciousness, Information 363 1
Microbial life under extreme energy limitation Tori M. Hoehler, Bo Barker Jørgensen Nature Reviews Microbiology 2013 355 3
Energy as a constraint on the coding and processing of sensory information S. B. Laughlin Current Opinion in Neurobiology 2001 353 4
Matching is as easy as matrix inversion Ketan Mulmuley, Umesh V. Vazirani, Vijay V. Vazirani Combinatorica 1987 05C25, AMS subject classification (1980): 68E10 351 1
The entorhinal grid map is discretized Hanne Stensola, Tor Stensola, Trygve Solstad, Kristian FrØland, May Britt Moser, Edvard I. Moser Nature 2012 350 3
Readers of histone modifications Miyong Yun, Jun Wu, Jerry L. Workman, Bing Li Cell Research 2011 chromatin, epigenetics, histone modification 347 0
Modeling the impact of lesions in the human brain Jeffrey Alstott, Michael Breakspear, Patric Hagmann, Leila Cammoun, Olaf Sporns PLoS Computational Biology 2009 347 0
The relationship between stochastic and deterministic models for chemical reactions Thomas G. Kurtz The Journal of Chemical Physics 1972 340 4
Functional organization of rat olfactory bulb analysed by the 2‐deoxyglucose method William B. Stewart, John S. Kauer, Gordon M. Shepherd Journal of Comparative Neurology 1979 340 0
Longitudinal gradients in periarteriolar oxygen tension. A possible mechanism for the participation of oxygen in local regulation of blood flow. B. R. Duling, R. M. Berne Circulation research 1970 340 0
Small-world properties of nonlinear brain activity in schizophrenia Mikail Rubinov, Stuart A. Knock, Cornelis J. Stam, Sifis Micheloyannis, Anthony W.F. Harris, Leanne M. Williams, Michael Breakspear Human Brain Mapping 2009 338 1
Disrupted axonal fiber connectivity in schizophrenia Andrew Zalesky, Alex Fornito, Marc L. Seal, Luca Cocchi, Carl Fredrik Westin, Edward T. Bullmore, Gary F. Egan, Christos Pantelis Biological Psychiatry 2011 Axonal connectivity, Diffusion tensor imaging, Network, Schizophrenia, Tractography, White-matter 335 5
Revealing modular architecture of human brain structural networks by using cortical thickness from MRI Zhang J. Chen, Yong He, Pedro Rosa-Neto, Jurgen Germann, Alan C. Evans Cerebral Cortex 2008 Betweenness centrality, Cortical thickness, MRI, Modularity, Morphometry, Network, Small world 335 2
Programmable chemical controllers made from DNA Yuan Jyue Chen, Neil Dalchau, Niranjan Srinivas, Andrew Phillips, Luca Cardelli, David Soloveichik, Georg Seelig Nature Nanotechnology 2013 331 4
Representations of Odor in the Piriform Cortex Dan D. Stettler, Richard Axel Neuron 2009 SIGNALING, SYSNEURO 331 0
Measurement of 'true' glucose production rates in infancy and childhood with 6,6-dideuteroglucose D. M. Bier, R. D. Leake, M. W. Haymond, K. J. Arnold, L. D. Gruenke, M. A. Sperling, D. M. Kipnis Diabetes 1977 328 0
Programming DNA tube circumferences Peng Yin, Rizal F. Hariadi, Sudheer Sahu, Harry M.T. Choi, Ha Park Sung, Thomas H. LaBean, John H. Reif Science 2008 327 0
Efficiency at maximum power: An analytically solvable model for stochastic heat engines T. Schmiedl, Udo Seifert EPL 2008 327 4
Experience-dependent rescaling of entorhinal grids Caswell Barry, Robin Hayman, Neil Burgess, Kathryn J. Jeffery Nature Neuroscience 2007 326 2
Colloquium: The physics of Maxwell's demon and information Koji Maruyama, Franco Nori, Vlatko Vedral Reviews of Modern Physics 2009 324 11
Nanoscale heat engine beyond the carnot limit J. Roßnagel, O. Abah, F. Schmidt-Kaler, K. Singer, E. Lutz Physical Review Letters 2014 324 2
Computation in networks of passively mobile finite-state sensors Dana Angluin, James Aspnes, Zoë Diamadi, Michael J. Fischer, René Peralta Distributed Computing 2006 Diffuse computation, Finite-state agent, Intermittent communication, Mobile agent, Sensor net, Stable computation 321 1
One-component systems dominate signal transduction in prokaryotes Luke E. Ulrich, Eugene V. Koonin, Igor B. Zhulin Trends in Microbiology 2005 320 1
Giant acceleration of free diffusion by use of tilted periodic potentials P. Reimann, H. Linke, P. Hänggi, J. M. Rubi, A. Pérez-Madrid, C. Van Den Broeck Physical Review Letters 2001 320 0
The neural code of the retina Markus Meister, Michael J. Berry Neuron 1999 313 0
Reversible thermoelectric nanomaterials T. E. Humphrey, H. Linke Physical Review Letters 2005 311 0
Current trends in finite-time thermodynamics Bjarne Andresen Angewandte Chemie - International Edition 2011 distillation, finite-time thermodynamics, heat engine, optimization, thermodynamics 308 1
Small modulation of ongoing cortical dynamics by sensory input during natural vision József Fiser, Chiayu Chiu, Michael Weliky Nature 2004 305 0
Rapid Neocortical Dynamics: Cellular and Network Mechanisms Bilal Haider, David A. McCormick Neuron 2009 301 0
Cooperative binding of two acetylation marks on a histone tail by a single bromodomain Jeanne Morinière, Sophie Rousseaux, Ulrich Steuerwald, Montserrat Soler-López, Sandrine Curtet, Anne Laure Vitte, Jérme Govin, Jonathan Gaucher, Karin Sadoul, Darren J. Hart, Jeroen Krijgsveld, Saadi Khochbin, Christoph W. Müller, Carlo Petosa Nature 2009 298 1
Generalized Jarzynski equality under nonequilibrium feedback control Takahiro Sagawa, Masahito Ueda Physical Review Letters 2010 296 3
Neurometabolic coupling in cerebral cortex reflects synaptic more than spiking activity Ahalya Viswanathan, Ralph D. Freeman Nature Neuroscience 2007 292 0
Non-equilibrium statistical mechanics: From a paradigmatic model to biological transport T. Chou, K. Mallick, R. K.P. Zia Reports on Progress in Physics 2011 292 2
Inhibition and Brain Work György Buzsáki, Kai Kaila, Marcus Raichle Neuron 2007 288 0
Violation of the fluctuation-dissipation theorem in glassy systems: Basic notions and the numerical evidence A. Crisanti, F. Ritort Journal of Physics A: Mathematical and General 2003 288 0
The connectional organization of the cortico-thalamic system of the cat J. W. Scannell, G. A.P.C. Burns, C. C. Hilgetag, M. A. O'Neil, M. P. Young Cerebral Cortex 1999 287 0
Why do female primates have such long lifespans and so few babies? or Life in the slow lane Eric L. Charnov, David Berrigan Evolutionary Anthropology: Issues, News, and Reviews 1993 Life history theory, growth, metabolism, reproduction 287 0
Modification of activity-dependent increases of cerebral blood flow by excitatory synaptic activity and spikes in rat cerebellar cortex Claus Mathiesen, Kirsten Caesar, Nuran Akgören, Martin Lauritzen Journal of Physiology 1998 285 1
Programmable ligand-controlled riboregulators of eukaryotic gene expression Travis S. Bayer, Christina D. Smolke Nature Biotechnology 2005 281 0
Forward flux sampling for rare event simulations Rosalind J. Allen, Chantal Valeriani, Pieter Rein ten Wolde Journal of Physics Condensed Matter 2009 277 0
Lower bounds for resolution and cutting plane proofs and monotone computations Pavel Pudlák Journal of Symbolic Logic 1997 276 0
Theoretical Analysis of Epigenetic Cell Memory by Nucleosome Modification Ian B. Dodd, Mille A. Micheelsen, Kim Sneppen, Geneviève Thon Cell 2007 SYSBIO 276 0
Fluctuation theorems for stochastic dynamics R. J. Harris, G. M. Schütz Journal of Statistical Mechanics: Theory and Experiment 2007 Driven diffusive systems (theory), Fluctuations (theory), Stochastic processes (theory) 276 6
Variable channel expression in identified single and electrically coupled neurons in different animals David J. Schulz, Jean Marc Goaillard, Eve Marder Nature Neuroscience 2006 271 0
Energetics and the evolution of human brain size Ana Navarrete, Carel P. Van Schaik, Karin Isler Nature 2011 271 1
Reversible Quantum Brownian Heat Engines for Electrons T. E. Humphrey, R. Newbury, R. P. Taylor, H. Linke Physical Review Letters 2002 271 0
Maintaining accuracy at the expense of speed: Stimulus similarity defines odor discrimination time in mice Nixon M. Abraham, Hartwig Spors, Alan Carleton, Troy W. Margrie, Thomas Kuner, Andreas T. Schaefer Neuron 2004 270 0
End of Moore's law: Thermal (noise) death of integration in micro and nano electronics Laszlo B. Kish Physics Letters, Section A: General, Atomic and Solid State Physics 2002 269 1
Thermodynamic Uncertainty Relation for Biomolecular Processes Andre C. Barato, Udo Seifert Physical Review Letters 2015 269 5
Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMENTHYLASE3 Anders M. Lindroth, David Shultis, Zuzana Jasencakova, Jörg Fuchs, Lianna Johnson, Daniel Schubert, Debasis Patnaik, Sriharsa Pradhan, Justin Goodrich, Ingo Schubert, Thomas Jenuwein, Sepideh Khorasanizadeh, Steven E. Jacobsen EMBO Journal 2004 Chromodomain, DNA methylation, Histone code, Histone methylation 268 0
The lac repressor displays facilitated diffusion in living cells Petter Hammar, Prune Leroy, Anel Mahmutovic, Erik G. Marklund, Otto G. Berg, Johan Elf Science 2012 268 0
A systems perspective on early olfactory coding Gilles Laurent Science 1999 268 0
Realization of a micrometre-sized stochastic heat engine Valentin Blickle, Clemens Bechinger Nature Physics 2012 265 5
Lower bounds on the size of bounded depth circuits over a complete basis with logical addition A. A. Razborov Mathematical Notes of the Academy of Sciences of the USSR 1987 261 0
Natural Proofs Alexander A. Razborov, Steven Rudich Journal of Computer and System Sciences 1997 261 6
Synthetic analog computation in living cells Ramiz Daniel, Jacob R. Rubens, Rahul Sarpeshkar, Timothy K. Lu Nature 2013 260 4
Asymmetrically modified nucleosomes Philipp Voigt, Gary LeRoy, William J. Drury, Barry M. Zee, Jinsook Son, David B. Beck, Nicolas L. Young, Benjamin A. Garcia, Danny Reinberg Cell 2012 258 0
An architecture for fault-tolerant computation with stochastic logic Weikang Qian, Xin Li, Marc D. Riedel, Kia Bazargan, David J. Lilja IEEE Transactions on Computers 2011 Stochastic logic, fault-tolerant computation, reconfigurable hardware 257 0
Evidence for early life in Earth's oldest hydrothermal vent precipitates Matthew S. Dodd, Dominic Papineau, Tor Grenne, John F. Slack, Martin Rittner, Franco Pirajno, Jonathan O'Neil, Crispin T.S. Little Nature 2017 256 2
Combined analog and action potential coding in hippocampal mossy fibers Henrik Alle, Jörg R.P. Geiger Science 2006 255 0
Operating on chromatin, a colorful language where context matters Kathryn E. Gardner, C. David Allis, Brian D. Strahl Journal of Molecular Biology 2011 chromatin, epigenetics, histone code, histones, post-translational modifications 254 0
Efficient physical embedding of topologically complex information processing networks in brains and computer circuits Danielle S. Bassett, Daniel L. Greenfield, Andreas Meyer-Lindenberg, Daniel R. Weinberger, Simon W. Moore, Edward T. Bullmore PLoS Computational Biology 2010 254 0
The physical nature of information Rolf Landauer Physics Letters, Section A: General, Atomic and Solid State Physics 1996 253 4
Pseudorandom generators for space-bounded computation Noam Nisan Combinatorica 1992 AMS subject classification code (1991): 68Q15 251 0
Invertible cellular automata: A review Tommaso Toffoli, Norman H. Margolus Physica D: Nonlinear Phenomena 1990 249 4
Olfactory Bulb Gordon M. Shepherd, Wei R. Chen, Charles A. Greer The Synaptic Organization of the Brain 2004 Odor, Olfactory system, Sensory neurons, Synaptic circuits, Synaptic organization 249 0
Thermoelectric efficiency at maximum power in a quantum dot K. Lindenberg, C. Van Den Broeck, Massimiliano Esposito EPL 2009 247 1
Derandomizing polynomial identity tests means proving circuit lower bounds Valentine Kabanets, Russell Impagliazzo Computational Complexity 2004 Circuit lower bounds, Derandomization, Hardness-randomness tradeoffs, Polynomial identity testing 246 0
Dynamics and memory of heterochromatin in living cells Nathaniel A. Hathaway, Oliver Bell, Courtney Hodges, Erik L. Miller, Dana S. Neel, Gerald R. Crabtree Cell 2012 245 0
Dynamical consequences of lesions in cortical networks Christopher J. Honey, Olaf Sporns Human Brain Mapping 2008 Connectivity, Graph theory, Kuramoto model, Lesion, Network, Neuroanatomy, Robustness 243 1
Observation of non-Hermitian degeneracies in a chaotic exciton-polariton billiard T. Gao, E. Estrecho, K. Y. Bliokh, T. C.H. Liew, M. D. Fraser, S. Brodbeck, M. Kamp, C. Schneider, S. Höfling, Y. Yamamoto, F. Nori, Y. S. Kivshar, A. G. Truscott, R. G. Dall, E. A. Ostrovskaya Nature 2015 243 0
Recognition of a mononucleosomal histone modification pattern by BPTF via multivalent interactions Alexander J. Ruthenburg, Haitao Li, Thomas A. Milne, Scott Dewell, Robert K. McGinty, Melanie Yuen, Beatrix Ueberheide, Yali Dou, Tom W. Muir, Dinshaw J. Patel, C. David Allis Cell 2011 242 2
Yeast heterochromatin: Regulation of its assembly and inheritance by histones Michael Grunstein Cell 1998 241 0
Brain growth, life history, and cognition in primate and human evolution S. R. Leigh American Journal of Primatology 2004 Apes, Brain development, Monkeys, Ontogeny 239 0
Thermodynamics of a colloidal particle in a time-dependent nonharmonic potential V. Blickle, T. Speck, L. Helden, C. Bechinger, Udo Seifert Physical Review Letters 2006 239 2
Notes on Landauer's principle, reversible computation, and Maxwell's Demon Charles H. Bennett Studies in History and Philosophy of Science Part B - Studies in History and Philosophy of Modern Physics 2003 Landauer's principle, Maxwell's demon, Second law of thermodynamics, Thermodynamics of information processing 238 3
Biochemical and pharmacological control of the multiplicity of coupling at G-protein-coupled receptors Emmanuel Hermans Pharmacology and Therapeutics 2003 Agonist-selective trafficking of receptor signalling, Desensitisation, G-protein-coupled receptors, Intracellular signalling, Promiscuity, Receptor regulation, Specificity 236 3
Determination of the nuclear magnetic resonance solution structure of an Antennapedia homeodomain-DNA complex Martin Billeter, Yan Qiu Qian, Gottfried Otting, Martin Müller, Walter Gehring, Kurt Wüthrich Journal of Molecular Biology 1993 13C-isotope labeling, Antennapedia homeodomain, NMR, Protein-DNA complex, Transcriptional regulation 235 3
Energetics of functional activation in neural tissues Louis Sokoloff Neurochemical Research 1999 Astrocyte, Glucose utilization, Glutamate, K+- ATPase, Na+, Potassium, Sodium 232 0
Nucleosomes are well positioned in exons and carry characteristic histone modifications Robin Andersson, Stefan Enroth, Alvaro Rada-Iglesias, Claes Wadelius, Jan Komorowski Genome Research 2009 231 0
The physics of molecular motors C. Bustamante, D. Keller, G. Oster Accounts of Chemical Research 2001 230 0
Silencing of transgene transcription precedes methylation of promoter DNA and histone H3 lysine 9 Vesco Mutskov, Gary Felsenfeld EMBO Journal 2004 Chromatin, DNA methylation, Histone acetylation, Histone methylation, Transgene silencing 229 0
A Hitchhiker's guide to statistical tests for assessing randomized algorithms in software engineering Andrea Arcuri, Lionel Briand Software Testing Verification and Reliability 2014 Bonferroni adjustment, confidence interval, effect size, nonparametric test, parametric test, statistical difference, survey, systematic review 228 3
Resurrecting ancient genes: Experimental analysis of extinct molecules Joseph W. Thornton Nature Reviews Genetics 2004 228 0
Necessary and sufficient conditions for complex balancing in chemical kinetics F. Horn Archive for Rational Mechanics and Analysis 1972 228 1
A small world of neuronal synchrony Shan Yu, Debin Huang, Wolf Singer, Danko Nikolić Cerebral Cortex 2008 Ising model, Maximum entropy, Orientation selectivity, Parallel recording, Scale free, Visual cortex 228 0
Resonances arising from hydrodynamic memory in Brownian motion Thomas Franosch, Matthias Grimm, Maxim Belushkin, Flavio M. Mor, Giuseppe Foffi, László Forró, Sylvia Jeney Nature 2011 228 0
Theory of reversible diffusion-influenced reactions Noam Agmon, Attila Szabo The Journal of Chemical Physics 1990 227 0
Fluctuation theorem for arbitrary open quantum systems Michele Campisi, Peter Talkner, Peter Hänggi Physical Review Letters 2009 227 1
Minimal energy cost for thermodynamic information processing: Measurement and information erasure Takahiro Sagawa, Masahito Ueda Physical Review Letters 2009 224 7
On the degree of boolean functions as real polynomials Noam Nisan, Mario Szegedy Computational Complexity 1994 68Q99, Approximation, Boolean functions, Fourier degree, Subject classifications: 68Q05, block sensitivity 223 1
The WUS homeobox-containing (WOX) protein family Eric van der Graaff, Thomas Laux, Stefan A. Rensing Genome Biology 2009 223 0
Low Power Microelectronics: Retrospect and Prospect James D. Meindl Proceedings of the IEEE 1995 221 1
Integrated information in discrete dynamical systems: Motivation and theoretical framework David Balduzzi, Giulio Tononi PLoS Computational Biology 2008 221 3
Design principles of a bacterial signalling network Markus Kollmann, Linda Løvdok, Kilian Bartholomé, Jens Timmer, Victor Sourjik Nature 2005 220 0
The thermodynamic meaning of negative entropy Lídia Del Rio, Johan Åberg, Renato Renner, Oscar Dahlsten, Vlatko Vedral Nature 2011 220 9
Rare events and the convergence of exponentially averaged work values Christopher Jarzynski Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2006 220 4
A C. elegans LSD1 Demethylase Contributes to Germline Immortality by Reprogramming Epigenetic Memory David J. Katz, T. Matthew Edwards, Valerie Reinke, William G. Kelly Cell 2009 218 0
Structural sources of robustness in biochemical reaction networks Guy Shinar, Martin Feinberg Science 2010 218 1
Insect olfactory receptors. J. Boeckh, K. E. Kaissling, D. Schneider Cold Spring Harbor symposia on quantitative biology 1965 218 0
Weight consistency specifies regularities of macaque cortical networks N. T. Markov, P. Misery, A. Falchier, C. Lamy, J. Vezoli, R. Quilodran, M. A. Gariel, P. Giroud, M. Ercsey-Ravasz, L. J. Pilaz, C. Huissoud, P. Barone, C. Dehay, Z. Toroczkai, D. C. Van Essen, H. Kennedy, K. Knoblauch Cerebral Cortex 2011 amygdala, area 17, macaque, network, primate, thalamus 216 0
Extension of the fluctuation theorem R. van Zon, E. G.D. Cohen Physical Review Letters 2003 216 0
Genome-wide patterns of histone modifications in yeast Catherine B. Millar, Michael Grunstein Nature Reviews Molecular Cell Biology 2006 215 0
Three faces of the second law. I. Master equation formulation2 Massimiliano Esposito, Christian Van Den Broeck Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2010 212 8
Local sites of activity-related glucose metabolism in rat olfactory bulb during olfactory stimulation Frank R. Sharp, John S. Kauer, Gordon M. Shepherd Brain Research 1975 212 0
The energy-speed-accuracy trade-off in sensory adaptation Ganhui Lan, Pablo Sartori, Silke Neumann, Victor Sourjik, Yuhai Tu Nature Physics 2012 212 0
Three faces of the second law. I. Master equation formulation Massimiliano Esposito, Christian Van Den Broeck Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2010 212 6
The energy–speed–accuracy trade-off in sensory adaptation Ganhui Lan, Pablo Sartori, Silke Neumann, Victor Sourjik, Yuhai Tu Nature Physics 2012 212 2
Construction of an in vitro bistable circuit from synthetic transcriptional switches Jongmin Kim, Kristin S. White, Erik Winfree Molecular Systems Biology 2006 Bistability, Design principles, Dynamical systems, Transcription, Ultrasensitivity 211 0
Mapping information flow in sensorimotor networks Max Lungarella, Olaf Sporns PLoS Computational Biology 2006 211 0
The sniff as a unit of olfactory processing Adam Kepecs, Naoshige Uchida, Zachary F. Mainen Chemical Senses 2006 Active sensation, Gamma rhythm, Hippocampus, Neural coding, Theta rhythm, Whisking 211 0
Synthetic in vitro transcriptional oscillators Jongmin Kim, Erik Winfree Molecular Systems Biology 2011 cell free, in vitro, oscillation, synthetic biology, transcriptional circuits 207 0
Transitions from Nonliving to Living Matter Steen Rasmussen, Liaohai Chen, David Deamer, David C. Krakauer, Norman H. Packard, Mark A. Bedau, Peter Stadler Science 2004 207 5
Experimental test of the quantum Jarzynski equality with a trapped-ion system Shuoming An, Jing Ning Zhang, Mark Um, Dingshun Lv, Yao Lu, Junhua Zhang, Zhang Qi Yin, H. T. Quan, Kihwan Kim Nature Physics 2015 207 0
Role of mechanical factors in the morphology of the primate cerebral cortex Claus C. Hilgetag, Helen Barbas PLoS Computational Biology 2006 206 0
Second law and Landauer principle far from equilibrium C. Van Den Broeck, Massimiliano Esposito EPL 2011 205 3
Size at birth, postnatal growth and risk of obesity K. K. Ong Hormone Research 2006 Birth weight, Catch-up, Diabetes, Obesity, Weight gain 203 0
Imprecise Computations Jane W.S. Liu, Wei Kuan Shih, Kwei Jay Lin, Jen Yao Chung Proceedings of the IEEE 1994 202 1
Second-order selection for evolvability in a large Escherichia coli population Robert J. Woods, Jeffrey E. Barrick, Tim F. Cooper, Utpala Shrestha, Mark R. Kauth, Richard E. Lenski Science 2011 201 0
The emergence of human uniqueness: Characters underlying behavioral modernity Kim Hill, Michael Barton, A. Magdalena Hurtado Evolutionary Anthropology 2009 201 1
Forward and backward propagation of dendritic impulses and their synaptic control in mitral cells Wei R. Chen, Jens Midtgaard, Gordon M. Shepherd Science 1997 200 0
Energy transduction of isothermal ratchets: Generic aspects and specific examples close to and far from equilibrium Andrea Parmeggiani, Frank Jülicher, Armand Ajdari, Jacques Prost Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 1999 199 0
The anatomical distance of functional connections predicts brain network topology in health and schizophrenia Aaron F. Alexander-Bloch, Petra E. Vértes, Reva Stidd, François Lalonde, Liv Clasen, Judith Rapoport, Jay Giedd, Edward T. Bullmore, Nitin Gogtay Cerebral Cortex 2013 brain network, functional connectivity, graph theory, normal development, schizophrenia 199 0
Fast-growth thermodynamic integration: Error and efficiency analysis G. Hummer Journal of Chemical Physics 2001 198 1
ATP Consumption by Mammalian Rod Photoreceptors in Darkness and in Light Haruhisa Okawa, Alapakkam P. Sampath, Simon B. Laughlin, Gordon L. Fain Current Biology 2008 SYSNEURO 197 0
Nonequilibrium fluctuations in a resistor N. Garnier, S. Ciliberto Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2005 197 0
Using information theory to search for co-evolving residues in proteins L. C. Martin, G. B. Gloor, S. D. Dunn, L. M. Wahl Bioinformatics 2005 196 0
Self-regulating gene: An exact solution J. E.M. Hornos, D. Schultz, G. C.P. Innocentini, J. Wang, A. M. Walczak, J. N. Onuchic, P. G. Wolynes Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2005 195 1
Motion out of noisy states Rolf Landauer Journal of Statistical Physics 1988 Relative stability, circulating currents, force fields, state-dependent noise, temperature gradients 195 0
Classical and quantum fluctuation theorems for heat exchange Christopher Jarzynski, Daniel K. Wójcik Physical Review Letters 2004 194 11
Fluctuations and irreversibility: An experimental demonstration of a second-law-like theorem using a colloidal particle held in an optical trap D. M. Carberry, J. C. Reid, G. M. Wang, E. M. Sevick, Debra J. Searles, Denis J. Evans Physical Review Letters 2004 194 0
Argonaute proteins couple chromatin silencing to alternative splicing Maya Ameyar-Zazoua, Christophe Rachez, Mouloud Souidi, Philippe Robin, Lauriane Fritsch, Robert Young, Nadya Morozova, Romain Fenouil, Nicolas Descostes, Jean Christophe Andrau, Jacques Mathieu, Ali Hamiche, Slimane Ait-Si-Ali, Christian Muchardt, Eric Batsché, Annick Harel-Bellan Nature Structural and Molecular Biology 2012 190 2
Combinatorial complexity in chromatin structure and function: Revisiting the histone code Oliver J. Rando Current Opinion in Genetics and Development 2012 190 0
Algorithmic randomness and physical entropy W. H. Zurek Physical Review A 1989 189 3
Fluctuation theorem for nonequilibrium reactions Pierre Gaspard Journal of Chemical Physics 2004 188 0
General peroxidase activity of G-quadruplex-hemin complexes and its application in ligand screening Xiaohong Cheng, Xiangjun Liu, Tao Bing, Zehui Cao, Dihua Shangguan Biochemistry 2009 187 1
Thermophoretic depletion follows boltzmann distribution Stefan Duhr, Dieter Braun Physical Review Letters 2006 187 0
Fast signals and slow marks: the dynamics of histone modifications Teresa K. Barth, Axel Imhof Trends in Biochemical Sciences 2010 187 2
Regulation of chromatin structure by long noncoding RNAs: Focus on natural antisense transcripts Marco Magistri, Mohammad Ali Faghihi, Georges St Laurent, Claes Wahlestedt Trends in Genetics 2012 Antisense RNA, Chromatin, Epigenetics, NATs, NcRNAs, Transcriptome 186 0
Defect and error tolerance in the presence of massive numbers of defects Melvin A. Breuer, Sandeep K. Gupta, T. M. Mak IEEE Design and Test of Computers 2004 186 0
Cellular stoichiometry of the components of the chemotaxis signaling complex Mingshan Li, Gerald L. Hazelbauer Journal of Bacteriology 2004 185 2
Optimal information storage and the distribution of synaptic weights: Perceptron versus Purkinje cell Nicolas Brunel, Vincent Hakim, Philippe Isope, Jean Pierre Nadal, Boris Barbour Neuron 2004 185 0
Path integral formulation of general diffusion processes Robert Graham Zeitschrift für Physik B Condensed Matter and Quanta 1977 184 1
Optimal finite-time processes in stochastic thermodynamics Tim Schmiedl, Udo Seifert Physical Review Letters 2007 183 1
One rule to grow them all: A general theory of neuronal branching and its practical application Hermann Cuntz, Friedrich Forstner, Alexander Borst, Michael Häusser PLoS Computational Biology 2010 181 0
ChIP-seq analysis reveals distinct H3K27me3 profiles that correlate with transcriptional activity Matthew D. Young, Tracy A. Willson, Matthew J. Wakefield, Evelyn Trounson, Douglas J. Hilton, Marnie E. Blewitt, Alicia Oshlack, Ian J. Majewski Nucleic Acids Research 2011 180 1
Conformational spread in a ring of proteins: A stochastic approach to allostery T. A.J. Duke, N. Le Novère, D. Bray Journal of Molecular Biology 2001 Allostery, Flagellar motor, Monte Carlo simulation, Statistical mechanics 180 1
Number of parallel fiber synapses on an individual Purkinje cell in the cerebellum of the rat R. M.A. Napper, R. J. Harvey Journal of Comparative Neurology 1988 dendritic spine, electron microscopic, molecular layer, stereology 179 0
The complexity of facets (and some facets of complexity) C. H. Papadimitriou, M. Yannakakis Journal of Computer and System Sciences 1984 178 0
Structure and stability of certain chemical networks and applications to the kinetic proofreading model of T-cell receptor signal transduction Eduardo D. Sontag IEEE Transactions on Automatic Control 2001 Chemical networks, Feedback, Immunology, Kinetic proofreading, Stability, System structure 177 0
Nonlinear fluctuation-dissipation relations and stochastic models in nonequilibrium thermodynamics. I. Generalized fluctuation-dissipation theorem G. N. Bochkov, Yu E. Kuzovlev Physica A: Statistical Mechanics and its Applications 1981 177 2
TrxG and PcG proteins but not methylated histones remain associated with DNA through replication Svetlana Petruk, Yurii Sedkov, Danika M. Johnston, Jacob W. Hodgson, Kathryn L. Black, Sina K. Kovermann, Samantha Beck, Eli Canaani, Hugh W. Brock, Alexander Mazo Cell 2012 176 4
Entropy production as correlation between system and reservoir Massimiliano Esposito, Katja Lindenberg, Christian Van Den Broeck New Journal of Physics 2010 176 6
Fly photoreceptors demonstrate energy-information trade-offs in neural coding Jeremy E. Niven, John C. Anderson, Simon B. Laughlin PLoS Biology 2007 176 0
The unique games conjecture, integrality gap for cut problems and embeddability of negative type metrics into l 1 Subhash A. Khot, Nisheeth K. Vishnoi Proceedings - Annual IEEE Symposium on Foundations of Computer Science, FOCS 2005 174 2
A histone mutant reproduces the phenotype caused by loss of histone-modifying factor polycomb Ana Raquel Pengelly, Ömer Copur, Herbert Jäckle, Alf Herzig, Jürg Müller Science 2013 173 0
The mesoscopic dynamics of thermodynamic systems D. Reguera, J. M. Rubí, J. M.G. Vilar Journal of Physical Chemistry B 2005 173 1
Theoretical predictions of spatiotemporal receptive fields of fly LMCs, and experimental validation J. H. van Hateren Journal of Comparative Physiology A 1992 Blowfly, LMC, Natural images 172 0
Sparse complete sets for NP: Solution of a conjecture of Berman and Hartmanis Stephen R. Mahaney Journal of Computer and System Sciences 1982 171 1
Stochastic thermodynamics under coarse graining Massimiliano Esposito Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2012 171 6
Measuring information integration Giulio Tononi, Olaf Sporns BMC Neuroscience 2003 170 0
Aerobic glycolysis in the human brain is associated with development and neotenous gene expression Manu S. Goyal, Michael Hawrylycz, Jeremy A. Miller, Abraham Z. Snyder, Marcus E. Raichle Cell Metabolism 2014 170 0
Complex parameter landscape for a complex neuron model Pablo Achard, Erik De Schutter PLoS Computational Biology 2006 169 2
Speeding up processing with approximation circuits Shih Lien Lu Computer 2004 168 0
Flaked stones and old bones: Biological and cultural evolution at the dawn of technology Thomas Plummer Yearbook of Physical Anthropology 2004 Africa, Early Homo, Oldowan, Plio-Pleistocene 168 0
An experimental test of the Jarzynski equality in a mechanical experiment F. Douarche, S. Ciliberto, A. Petrosyan, I. Rabbiosi Europhysics Letters 2005 168 1
Synaptic connectivity and neuronal morphology: Two sides of the same coin Dmitri B. Chklovskii Neuron 2004 167 0
Efficiency at maximum power of Feynman's ratchet as a heat engine Z. C. Tu Journal of Physics A: Mathematical and Theoretical 2008 167 0
Histone acetylation as an epigenetic determinant of long-term transcriptional competence B. M. Turner Cellular and Molecular Life Sciences 1998 Cell memory, Chromatin, Dosage compensation, Drosophila, Histone acetylation 166 0
Computation with finite stochastic chemical reaction networks David Soloveichik, Matthew Cook, Erik Winfree, Jehoshua Bruck Natural Computing 2008 Molecular counts, Probabilistic computation, Stochastic chemical kinetics, Turing-universal computation 166 5
Molecular combustion motors Marcelo O. Magnasco Physical Review Letters 1994 166 0
Generalized fluctuation-dissipation theorem for steady-state systems J. Prost, J. F. Joanny, J. M.R. Parrondo Physical Review Letters 2009 165 0
A 32-bit powerPC system-on-a-chip with support for dynamic voltage scaling and dynamic frequency scaling Kevin J. Nowka, Gary D. Carpenter, Eric W. MacDonald, Hung C. Ngo, Bishop C. Brock, Koji I. Ishii, Tuyet Y. Nguyen, Jeffrey L. Burns IEEE Journal of Solid-State Circuits 2002 Dynamic frequency scaling, Dynamic voltage scaling, Low power microprocessors, Phase-locked loops 165 0
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 Pflugers Archiv European Journal of Physiology 1999 Arterioles, Brain cortex, Capillaries, Oxygen diffusion, Oxygen tension, PO2 gradient, PO2 microelectrode, Venules 165 0
The microvascular system of the striate and extrastriate visual cortex of the macaque Bruno Weber, Anna Lena Keller, Johannes Reichold, Nikos K. Logothetis Cerebral Cortex 2008 Capillaries, Cerebral blood flow, Collagen, Monkey, Neuroimaging, Primate 165 0
Genetic screens and selections for small molecules based on a synthetic riboswitch that activates protein translation Shawn K. Desai, Justin P. Gallivan Journal of the American Chemical Society 2004 164 0
A quantitative analysis of sniffing strategies in rats performing odor detection tasks Steven L. Youngentob, Maxwell M. Mozell, Paul R. Sheehe, David E. Hornung Physiology and Behavior 1987 Odor detection task, Pneumotachograph, Rats, Sniffing strategy 163 1
The folding cooperativity of a protein is controlled by its chain topology Elizabeth A. Shank, Ciro Cecconi, Jesse W. Dill, Susan Marqusee, Carlos Bustamante Nature 2010 163 0
Computational design and experimental validation of oligonucleotide-sensing allosteric ribozymes Robert Penchovsky, Ronald R. Breaker Nature Biotechnology 2005 161 0
Optimal Process Paths for Endoreversible Systems K. H. Hoffmann, J. Burzler, A. Fischer, M. Schaller, S. Schubert Journal of Non-Equilibrium Thermodynamics 2003 161 0
Rethinking mammalian brain evolution Terrence W. Deacon Integrative and Comparative Biology 1990 160 2
Noise stability of functions with low influences: Invariance and optimality Elchanan Mossel, Ryan O'donnell, Krzysztof Oleszkiewicz Annals of Mathematics 2010 159 0
Encoding and Error-Correction Procedures for the Bose-Chaudhuri Codes W. W. Peterson IRE Transactions on Information Theory 1960 159 6
Thermodynamics with continuous information flow Jordan M. Horowitz, Massimiliano Esposito Physical Review X 2014 Interdisciplinary physics, Statistical physics 159 6
High-precision test of Landauer's principle in a feedback trap Yonggun Jun, Momčilo Gavrilov, John Bechhoefer Physical Review Letters 2014 159 0
Open-system nonequilibrium steady state: Statistical thermodynamics, fluctuations, and chemical oscillations Hong Qian Journal of Physical Chemistry B 2006 159 4
Fast and slow photoreceptors - a comparative study of the functional diversity of coding and conductances in the Diptera S. B. Laughlin, M. Weckström Journal of Comparative Physiology A 1993 Diversity, Photoreceptor, Potassium channels, Response dynamics, Visual ecology 157 0
Functional brain network efficiency predicts intelligence Nicolas Langer, Andreas Pedroni, Jürgen Hänggi, Daria Knoch, Lutz Jäncke, Lorena R.R. Gianotti Human Brain Mapping 2012 EEG, Intelligence, Neuroscience, Small-world network 157 1
Fluctuation theorem for currents and Schnakenberg network theory David Andrieux, Pierre Gaspard Journal of Statistical Physics 2007 Affinities, Entropy production, Fluctuation theorem, Nonequilibrium steady state, Thermodynamic forces 156 1
One way functions and pseudorandom generators Leonid A. Levin Combinatorica 1987 155 0
Brownian motion: A paradigm of soft matter and biological physics Erwin Frey, Klaus Kroy Annalen der Physik (Leipzig) 2005 Biological physics, Brownian motion, Fluctuations, Stochastic processes 155 4
Life under extreme energy limitation: A synthesis of laboratory- and field-based investigations Mark A. Lever, Karyn L. Rogers, Karen G. Lloyd, Jörg Overmann, Bernhard Schink, Rudolf K. Thauer, Tori M. Hoehler, Bo Barker Jørgensen FEMS Microbiology Reviews 2015 Adaptation, Energy limitation, Laboratory, Microbial life, Starvation, Subseafloor 154 0
Single-photon detection by rod cells of the retina F. Rieke, D. A. Baylor Reviews of Modern Physics 1998 154 2
A modular gradient-sensing network for chemotaxis in Escherichia coli revealed by responses to time-varying stimuli Thomas S. Shimizu, Yuhai Tu, Howard C. Berg Molecular Systems Biology 2010 Monod Wyman Changeux (MWC) model, adaptation, feedback, fluorescence resonance energy transfer (FRET), frequency response 154 0
Thermodynamic bounds on efficiency for systems with broken time-reversal symmetry Giuliano Benenti, Keiji Saito, Giulio Casati Physical Review Letters 2011 152 0
Nonequilibrium work theorem for a system strongly coupled to a thermal environment Chris Jarzynski Journal of Statistical Mechanics: Theory and Experiment 2004 exact results, fluctuations (theory) 152 0
Principles of control thermodynamics P. Salamon, J. D. Nulton, G. Siragusa, T. R. Andersen, A. Limon Energy 2001 151 0
Biomolecules under mechanical force Sanjay Kumar, Mai Suan Li Physics Reports 2010 Computer simulations, DNA, Protein, Single-molecule force spectroscopy 151 0
Thermodynamics of stoichiometric biochemical networks in living systems far from equilibrium Hong Qian, Daniel A. Beard Biophysical Chemistry 2005 Biological networks, Cycle kinetics, Mathematical modeling, Metabolism, Systems biology 150 5
A quantitative comparison of sRNA-based and protein-based gene regulation Pankaj Mehta, Sidhartha Goyal, Ned S. Wingreen Molecular Systems Biology 2008 Biophysics, Genetic networks, Signal processing, Small RNA 150 0
Metabolic correlates of hominid brain evolution William R. Leonard, Marcia L. Robertson, J. Josh Snodgrass, Christopher W. Kuzawa Comparative Biochemistry and Physiology - A Molecular and Integrative Physiology 2003 Adiposity, Body composition, Diet quality, Encephalization, Homo erectus, Resting metabolism 150 0
Response correlation maps of neurons in the mammalian olfactory bulb Minmin Luo, Lawrence C. Katz Neuron 2001 150 0
Neurobiologically realistic determinants of Self-Organized criticality in networks of spiking neurons Mikail Rubinov, Olaf Sporns, Jean Philippe Thivierge, Michael Breakspear PLoS Computational Biology 2011 149 0
Observation of the Kibble-Zurek scaling law for defect formation in ion crystals S. Ulm, J. Roßnagel, G. Jacob, C. Degünther, S. T. Dawkins, U. G. Poschinger, R. Nigmatullin, A. Retzker, M. B. Plenio, F. Schmidt-Kaler, K. Singer Nature Communications 2013 149 0
Intraglomerular inhibition: Signaling mechanisms of an olfactory microcircuit Gabe J. Murphy, Daniel P. Darcy, Jeffry S. Isaacson Nature Neuroscience 2005 148 0
Mechanisms for the inheritance of chromatin states Danesh Moazed Cell 2011 147 0
Nutritional requirements and human evolution: A bioenergetics model William R. Leonard, Marcia L. Robertson American Journal of Human Biology 1992 147 0
Physical origins of entropy production, free energy dissipation, and their mathematical representations Hao Ge, Hong Qian Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2010 146 5
Thermodynamics of a physical model implementing a Maxwell demon Philipp Strasberg, Gernot Schaller, Tobias Brandes, Massimiliano Esposito Physical Review Letters 2013 146 3
Optical realization of relativistic non-Hermitian quantum mechanics Stefano Longhi Physical Review Letters 2010 146 0
The physics of forgetting: Landauer's erasure principle and information theory M. B. Plenio, V. Vitelli Contemporary Physics 2001 145 10
Probability currents as principal characteristics in the statistical mechanics of non-equilibrium steady states R. K.P. Zia, B. Schmittmann Journal of Statistical Mechanics: Theory and Experiment 2007 Driven diffusive systems (theory), Stationary states (theory), Stochastic processes (theory) 145 0
Criticism of Feynman’s analysis of the ratchet as an engine Juan M. R. Parrondo, Pep Español American Journal of Physics 1996 142 2
Costs of encephalization: the energy trade-off hypothesis tested on birds Karin Isler, Carel van Schaik Journal of Human Evolution 2006 Brain size, Digestion, Expensive Tissue Hypothesis, Gut size, Locomotion, Reproduction 141 1
Inhibition of cerebral oxygen and glucose consumption in the dog by hypothermia, pentobarbital, and lidocaine J. Astrup, P. M. Sorensen, H. R. Sorensen Anesthesiology 1981 141 0
Characterization of the RNA content of chromatin Tanmoy Mondal, Markus Rasmussen, Gaurav Kumar Pandey, Anders Isaksson, Chandrasekhar Kanduri Genome Research 2010 139 0
Thermodynamic constraints for biochemical networks Daniel A. Beard, Eric Babson, Edward Curtis, Hong Qian Journal of Theoretical Biology 2004 Biochemical network, Matroid, Metabolic flux analysis, Nonequilibrium thermodynamics 139 4
Leveraging program equivalence for adaptive program repair: Models and first results Westley Weimer, Zachary P. Fry, Stephanie Forrest 2013 28th IEEE/ACM International Conference on Automated Software Engineering, ASE 2013 - Proceedings 2013 Automated program repair, mutation testing, program equivalence, search-based software engineering 138 0
Fluctuation theorem with information exchange: Role of correlations in stochastic thermodynamics Takahiro Sagawa, Masahito Ueda Physical Review Letters 2012 138 3
How Much the Eye Tells the Brain Kristin Koch, Judith McLean, Ronen Segev, Michael A. Freed, Michael J. Berry, Vijay Balasubramanian, Peter Sterling Current Biology 2006 SYSNEURO 138 0
Sodium Entry during Action Potentials of Mammalian Neurons: Incomplete Inactivation and Reduced Metabolic Efficiency in Fast-Spiking Neurons Brett C. Carter, Bruce P. Bean Neuron 2009 molneuro, signaling 138 0
Games against nature Christos H. Papadimitriou Journal of Computer and System Sciences 1985 137 6
Experimental observation of the role of mutual information in the nonequilibrium dynamics of a Maxwell demon J. V. Koski, V. F. Maisi, T. Sagawa, J. P. Pekola Physical Review Letters 2014 137 0
Neuroenergetics and the kinetic design of excitatory synapses David Attwell, Alasdair Gibb Nature Reviews Neuroscience 2005 137 4
Computation on stochastic bit streams digital image processing case studies Peng Li, David J. Lilja, Weikang Qian, Kia Bazargan, Marc D. Riedel IEEE Transactions on Very Large Scale Integration (VLSI) Systems 2014 Digital image processing, fault tolerance, finite state machine (FSM), stochastic computing 136 3
Visual DSD: A design and analysis tool for DNA strand displacement systems Matthew R. Lakin, Simon Youssef, Filippo Polo, Stephen Emmott, Andrew Phillips Bioinformatics 2011 136 2
Information theory in molecular biology Christoph Adami Physics of Life Reviews 2004 135 1
On the shoulders of giants: Properties of the stellar halo and the milky way mass distribution Prajwal Raj Kafle, Sanjib Sharma, Geraint F. Lewis, Joss Bland-Hawthorn Astrophysical Journal 2014 Galaxy: fundamental parameters, Galaxy: halo, Galaxy: kinematics and dynamics, dark matter, stars: horizontal-branch 135 0
Energy aware computing through probabilistic switching: A study of limits Krishna V. Palem IEEE Transactions on Computers 2005 Energy-aware systems, Low-power design, Probabilistic computation 134 2
Odorant representations are modulated by intra- but not interglomerular presynaptic inhibition of olfactory sensory neurons John P. McGann, Nicolás Pírez, Melanie A. Gainey, Christina Muratore, Adam S. Elias, Matt Wachowiak Neuron 2005 134 0
The magnificent compromise: cortical field evolution in mammals. Leah Krubitzer Neuron 2007 134 0
Quantum equivalent of the Carnot cycle J. E. Geusic, E. O. Schulz-DuBios, H. E.D. Scovil Physical Review 1967 134 2
Energy Aware Computing Through Probabilistic Switching: A Study of Limits Krishna V. Palem IEEE Transactions on Computers 2005 Energy-aware systems, Low-power design, Probabilistic computation 134 1
Parallel mechanisms of epigenetic reprogramming in the germline Jamie A. Hackett, Jan J. Zylicz, M. Azim Surani Trends in Genetics 2012 133 0
Dissipation and noise immunity in computation and communication Rolf Landauer Nature 1988 133 6
Functional connectivity between anatomically unconnected areas is shaped by collective network-level effects in the macaque cortex Yusuke Adachi, Takahiro Osada, Olaf Sporns, Takamitsu Watanabe, Teppei Matsui, Kentaro Miyamoto, Yasushi Miyashita Cerebral Cortex 2012 anatomical connectivity, computational model, fMRI, functional connectivity, network 133 1
Nonequilibrium detailed fluctuation theorem for repeated discrete feedback Jordan M. Horowitz, Suriyanarayanan Vaikuntanathan Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2010 133 1
Quantum szilard engine Sang Wook Kim, Takahiro Sagawa, Simone De Liberato, Masahito Ueda Physical Review Letters 2011 132 0
Theory of a Systematic Computational Error in Free Energy Differences Daniel M. Zuckerman, Thomas B. Woolf Physical Review Letters 2002 132 0
Information-theoretic approach to the study of control systems Hugo Touchette, Seth Lloyd Physica A: Statistical Mechanics and its Applications 2004 Chaotic systems, Control, Entropy, Information, Noise 132 10
Path-integral analysis of fluctuation theorems for general Langevin processes Vladimir Y. Chernyak, Michael Chertkov, Christopher Jarzynski Journal of Statistical Mechanics: Theory and Experiment 2006 Driven diffusive systems (theory), Exact results, Rigorous results in statistical mechanics 132 13
Split decision: What happens to nucleosomes during DNA replication? Anthony T. Annunziato Journal of Biological Chemistry 2005 131 0
Reversible electronic logic using switches R. C. Merkle Nanotechnology 1993 131 0
High nucleosome occupancy is encoded at human regulatory sequences Desiree Tillo, Noam Kaplan, Irene K. Moore, Yvonne Fondufe-Mittendorf, Andrea J. Gossett, Yair Field, Jason D. Lieb, Jonathan Widom, Eran Segal, Timothy R. Hughes PLoS ONE 2010 131 0
On the origin of modular variation Hod Lipson, Jordan B. Pollack, Nam P. Suh Evolution 2002 Adaptation, Development, Evolvability, Modularity, Pleiotropy 130 0
Work fluctuation theorems for harmonic oscillators F. Douarche, S. Joubaud, N. B. Garnier, A. Petrosyan, S. Ciliberto Physical Review Letters 2006 128 0
Influence of combinatorial histone modifications on antibody and effector protein recognition Stephen M. Fuchs, Krzysztof Krajewski, Richard W. Baker, Victoria L. Miller, Brian D. Strahl Current Biology 2011 126 0
Prevalence of epistasis in the evolution of influenza A surface proteins Sergey Kryazhimskiy, Jonathan Dushoff, Georgii A. Bazykin, Joshua B. Plotkin PLoS Genetics 2011 126 0
Biorthogonal quantum mechanics Dorje C. Brody Journal of Physics A: Mathematical and Theoretical 2014 PT symmetry, biorthogonal basis, non-Hermitian Hamiltonian 126 9
Injected power fluctuations in Langevin equation Jean Farago Journal of Statistical Physics 2002 Fluctuation phenomena, Noise and Brownian motion, Random processes 126 0
Qualia: The geometry of integrated information David Balduzzi, Giulio Tononi PLoS Computational Biology 2009 125 0
Cooperative multicomponent self-assembly of nucleic acid structures for the activation of DNAzyme cascades: A paradigm for DNA sensors and aptasensors Johann Elbaz, Michal Moshe, Bella Shlyahovsky, Itamar Willner Chemistry - A European Journal 2009 Aptamers, Biosensors, DNAzymes, Nanostructures, Self-assembly 125 0
Symbiotic relationship between brain structure and dynamics Mikail Rubinov, Olaf Sporns, Cees van Leeuwen, Michael Breakspear BMC Neuroscience 2009 125 0
Correcting errors beyond the Guruswami-Sudan radius in polynomial time Farzad Parvaresh, Alexander Vardy Proceedings - Annual IEEE Symposium on Foundations of Computer Science, FOCS 2005 123 1
Diversity in the dynamical behaviour of a compartmentalized programmable biochemical oscillator Maximilian Weitz, Jongmin Kim, Korbinian Kapsner, Erik Winfree, Elisa Franco, Friedrich C. Simmel Nature Chemistry 2014 123 1
New device for high-throughput viability screening of flow biofilms Michael R. Benoit, Carolyn G. Conant, Cristian Ionescu-Zanetti, Michael Schwartz, A. Matin Applied and Environmental Microbiology 2010 123 0
A simple population protocol for fast robust approximate majority Dana Angluin, James Aspnes, David Eisenstat Distributed Computing 2008 Byzantine faults, Epidemics, Majority, Population protocols 122 2
Einstein relation generalized to nonequilibrium V. Blickle, T. Speck, C. Lutz, C. Bechinger, Udo Seifert Physical Review Letters 2007 122 1
Integral fluctuation theorem for the housekeeping heat T. Speck, Udo Seifert Journal of Physics A: Mathematical and General 2005 122 2
Matching coding, circuits, cells, and molecules to signals: General principles of retinal design in the fly's eye Simon B. Laughlin Progress in Retinal and Eye Research 1994 121 2
Life history costs and benefits of encephalization: a comparative test using data from long-term studies of primates in the wild Nancy L. Barrickman, Meredith L. Bastian, Karin Isler, Carel P. van Schaik Journal of Human Evolution 2008 Brain growth, Brain size, Comparative analysis, Human evolution, Primate evolution 121 3
Quantum criticality as a resource for quantum estimation Paolo Zanardi, Matteo G.A. Paris, Lorenzo Campos Venuti Physical Review A - Atomic, Molecular, and Optical Physics 2008 121 1
Fluidized granular medium as an instance of the fluctuation theorem Klebert Feitosa, Narayanan Menon Physical Review Letters 2004 121 0
Fast computation by population protocols with a leader Dana Angluin, James Aspnes, David Eisenstat Distributed Computing 2008 120 0
Enzyme-free nucleic acid dynamical systems Niranjan Srinivas, James Parkin, Georg Seelig, Erik Winfree, David Soloveichik Science 2017 120 0
The effects of spatial constraints on the evolution of weighted complex networks Alain Barrat, Marc Barthélemy, Alessandro Vespignani Journal of Statistical Mechanics: Theory and Experiment 2005 Network dynamics, Networks, Random graphs 120 0
Fluctuation theorems for quantum master equations Massimiliano Esposito, Shaul Mukamel Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2006 120 2
Comparison of far-from-equilibrium work relations Christopher Jarzynski Comptes Rendus Physique 2007 Nonequilibrium systems, Work relations 120 14
BPP and the polynomial hierarchy Clemens Lautemann Information Processing Letters 1983 Complexity, polynomial hierarchy, probabilistic Turing machines 119 8
Incremental growth tables: Supplementary to previously published charts R. N. Baumgartner, A. F. Roche, J. H. Himes American Journal of Clinical Nutrition 1986 119 1
Nonequilibrium energetics of a single F1-ATPase molecule Shoichi Toyabe, Tetsuaki Okamoto, Takahiro Watanabe-Nakayama, Hiroshi Taketani, Seishi Kudo, Eiro Muneyuki Physical Review Letters 2010 119 0
Making copies of chromatin: the challenge of nucleosomal organization and epigenetic information Armelle Corpet, Geneviève Almouzni Trends in Cell Biology 2009 118 0
Heterochromatin formation involves changes in histone modifications over multiple cell generations Yael Katan-Khaykovich, Kevin Struhl EMBO Journal 2005 Epigenetic transition, Heterochromatin, Histone methylation, Sir proteins, Transcriptional silencing 118 0
An informational process based on reversible universal cellular automata Edward Fredkin Physica D: Nonlinear Phenomena 1990 118 9
Using profile information to assist classic code optimizations Pohua P. Chang, Scott A. Mahlke, Wen‐Mei W. Hwu Software: Practice and Experience 1991 C, Code optimization, Compiler, Profiler, Profile‐based code optimization 117 0
The ManyBugs and IntroClass Benchmarks for Automated Repair of C Programs Claire Le Goues, Neal Holtschulte, Edward K. Smith, Yuriy Brun, Premkumar Devanbu, Stephanie Forrest, Westley Weimer IEEE Transactions on Software Engineering 2015 Automated program repair, INTROCLASS, MANYBUGS, benchmark, reproducibility, subject defect 117 1
Information processing and the second law of thermodynamics: An inclusive, Hamiltonian approach Sebastian Deffner, Christopher Jarzynski Physical Review X 2014 117 8
Parallel fibre receptive fields of purkinje cells and interneurons are climbing fibre-specific C. F. Ekerot, H. Jörntell European Journal of Neuroscience 2001 Basket cells, Cat, Cerebellum, Golgi cells, LTD, LTP, Stellate cells 117 0
Reducibility among combinatorial problems Richard M. Karp 50 Years of Integer Programming 1958-2008: From the Early Years to the State-of-the-Art 2010 116 4
Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements Anshul Kundaje, Sofia Kyriazopoulou-Panagiotopoulou, Max Libbrecht, Cheryl L. Smith, Debasish Raha, Elliott E. Winters, Steven M. Johnson, Michael Snyder, Serafim Batzoglou, Arend Sidow Genome Research 2012 116 0
Fluctuation theorem applied to F1-ATPase Kumiko Hayashi, Hiroshi Ueno, Ryota Iino, Hiroyuki Noji Physical Review Letters 2010 116 0
Effective temperature of active matter Davide Loi, Stefano Mossa, Leticia F. Cugliandolo Physical Review E - Statistical, Nonlinear, and Soft Matter Physics 2008 116 1

... further results