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From Thermodynamics of Computation
Author name | Source name | Year | |
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Necessary and sufficient conditions for complex balancing in chemical kinetics | F. Horn | Archive for Rational Mechanics and Analysis | 1972 |
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 |
Comparison of work fluctuation relations | Jordan Horowitz Christopher Jarzynski | Journal of Statistical Mechanics: Theory and Experiment | 2007 |
Thermodynamic reversibility in feedback processes | Jordan M. Horowitz Juan M.R. Parrondo | EPL | 2011 |
Thermodynamics: A stirling effort | Jordan M. Horowitz Juan M.R. Parrondo | Nature Physics | 2012 |
Optimizing non-ergodic feedback engines | Jordan M. Horowitz Juan M.R. Parrondo | Acta Physica Polonica B | 2013 |
Thermodynamics with continuous information flow | Jordan M. Horowitz Massimiliano Esposito | Physical Review X | 2014 |
Nonequilibrium detailed fluctuation theorem for repeated discrete feedback | Jordan M. Horowitz Suriyanarayanan Vaikuntanathan | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2010 |
Designing optimal discrete-feedback thermodynamic engines | Jordan M. Horowitz Juan M.R. Parrondo | New Journal of Physics | 2011 |
Second-law-like inequalities with information and their interpretations | Jordan M. Horowitz Henrik Sandberg | New Journal of Physics | 2014 |
Imitating chemical motors with optimal information motors | Jordan M. Horowitz Takahiro Sagawa Juan M.R. Parrondo | Physical Review Letters | 2013 |
Parallel simulation of compressible flow using automatic differentiation and PETSc | Paul D. Hovland Lois C. McInnes | Parallel Computing | 2001 |
Effects of reservoir squeezing on quantum systems and work extraction | X. L. Huang Tao Wang X. X. Yi | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2012 |
Fast-growth thermodynamic integration: Error and efficiency analysis | G. Hummer | Journal of Chemical Physics | 2001 |
Reversible Quantum Brownian Heat Engines for Electrons | T. E. Humphrey R. Newbury R. P. Taylor H. Linke | Physical Review Letters | 2002 |
Reversible thermoelectric nanomaterials | T. E. Humphrey H. Linke | Physical Review Letters | 2005 |
Work and heat probability distributions in out-of-equilibrium systems | Alberto Imparato Luca Peliti | Comptes Rendus Physique | 2007 |
Fluctuation relations for a driven Brownian particle | A. Imparato L. Peliti | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2006 |
The distribution function of entropy flow in stochastic systems | A. Imparato L. Peliti | Journal of Statistical Mechanics: Theory and Experiment | 2007 |
Probability density functions of work and heat near the stochastic resonance of a colloidal particle | Alberto Imparato Pierre Jop Artyom Petrosyan Sergio Ciliberto | Journal of Statistical Mechanics: Theory and Experiment | 2008 |
Reconstructing the free-energy landscape of a mechanically unfolded model protein | Alberto Imparato Stefano Luccioli Alessandro Torcini | Physical Review Letters | 2007 |
Work and heat probability distribution of an optically driven Brownian particle: Theory and experiments | A. Imparato L. Peliti G. Pesce G. Rusciano A. Sasso | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2007 |
Workshop report:Modeling the molecularmechanism of bacterial spore germination and elucidating reasons for germination heterogeneity | Karl J. Indest Wallace G. Buchholz Jim R. Faeder Peter Setlow | Journal of Food Science | 2009 |
Costs of encephalization: the energy trade-off hypothesis tested on birds | Karin Isler Carel van Schaik | Journal of Human Evolution | 2006 |
Stochastic equations in black hole backgrounds and non-equilibrium fluctuation theorems | Satoshi Iso Susumu Okazawa | Nuclear Physics B | 2011 |
Information thermodynamics on causal networks | Sosuke Ito Takahiro Sagawa | Physical Review Letters | 2013 |
Maxwell's demon in biochemical signal transduction with feedback loop | Sosuke Ito Takahiro Sagawa | Nature Communications | 2015 |
Pushing the limits of lithography | Takashi Ito Shinji Okazaki | Nature | 2000 |
Study of stochastic resonance by method of stochastic energetics | Toshiya Iwai | Physica A: Statistical Mechanics and its Applications | 2001 |
Stochasticity of gene products from transcriptional pulsing | Srividya Iyer-Biswas F. Hayot C. Jayaprakash | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2009 |
Molecular kinetic analysis of a finite-time Carnot cycle | Y. Izumida K. Okuda | EPL | 2008 |
Onsager coefficients of a Brownian Carnot cycle | Y. Izumida K. Okuda | European Physical Journal B | 2010 |
Histone Segregation on Replicating Chromatinâ | Vaughn Jackson Roger Chalkley | Biochemistry | 1985 |
Histone Segregation on Replicating Chromatin† | Vaughn Jackson Roger Chalkley | Biochemistry | 1985 |
Second law of thermodynamics and quantum feedback control: Maxwell’s demon with weak measurements | Kurt Jacobs | Physical Review A - Atomic, Molecular, and Optical Physics | 2009 |
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 |
Stretching the limits of clock-gating efficiency in server-class processors | Hans Jacobson Pradip Bose Zhigang Hu Alper Buyuktosunoglu Victor Zyuban Rick Eickemeyer Lee Eisen John Griswell Doug Logan Balaram Sinharoy Joel Tendier | Proceedings - International Symposium on High-Performance Computer Architecture | 2005 |
Role of Astrocytes in Matching Blood Flow to Neuronal Activity | Danica Jakovcevic David R. Harder | Current Topics in Developmental Biology | 2007 |
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 |
Nonequilibrium equality for free energy differences | C. Jarzynski | Physical Review Letters | 1997 |
Comparison of far-from-equilibrium work relations | Christopher Jarzynski | Comptes Rendus Physique | 2007 |
Nonequilibrium work theorem for a system strongly coupled to a thermal environment | Chris Jarzynski | Journal of Statistical Mechanics: Theory and Experiment | 2004 |
Rare events and the convergence of exponentially averaged work values | Christopher Jarzynski | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2006 |
Lag inequality for birth-death processes with time-dependent rates | Christopher Jarzynski | Journal of Physics A: Mathematical and General | 2005 |
Equalities and Inequalities: Irreversibility and the Second Law of Thermodynamics at the Nanoscale | Christopher Jarzynski | Annual Review of Condensed Matter Physics | 2011 |
Classical and quantum fluctuation theorems for heat exchange | Christopher Jarzynski Daniel K. Wójcik | Physical Review Letters | 2004 |
Generating Binary Sequences for Stochastic Computing | P. Jeavons D. A. Cohen J. Shawe-Taylor | IEEE Transactions on Information Theory | 1994 |
Translating the histone code | T. Jenuwein C. D. Allis | Science | 2001 |
Nucleosome positioning and gene regulation: Advances through genomics | Cizhong Jiang B. Franklin Pugh | Nature Reviews Genetics | 2009 |
Asynchronous computation with molecular reactions | Hua Jiang Marc D. Riedel Keshab K. Parhi | Conference Record - Asilomar Conference on Signals, Systems and Computers | 2011 |
Effective temperatures of a heated Brownian particle | L. Joly S. Merabia J. L. Barrat | EPL | 2011 |
An efficient graph theory based method to identify every minimal reaction set in a metabolic network | Sudhakar Jonnalagadda Rajagopalan Srinivasan | BMC Systems Biology | 2014 |
Work and dissipation fluctuations near the stochastic resonance of a colloidal particle | P. Jop A. Petrosyan S. Ciliberto | EPL | 2008 |
Work fluctuations in a nematic liquid crystal | S. Joubaud G. Huillard A. Petrosyan S. Ciliberto | Journal of Statistical Mechanics: Theory and Experiment | 2009 |
Fluctuations of the total entropy production in stochastic systems | S. Joubaud N. B. Garnier S. Ciliberto | EPL | 2008 |
Fluctuation theorems for an asymmetric rotor in a granular gas | Sylvain Joubaud Detlef Lohse Devaraj Van Der Meer | Physical Review Letters | 2012 |
The energy expansions of evolution | Olivia P. Judson | Nature Ecology and Evolution | 2017 |
High-precision test of Landauer's principle in a feedback trap | Yonggun Jun Momčilo Gavrilov John Bechhoefer | Physical Review Letters | 2014 |
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 |
Easiness Assumptions and Hardness Tests: Trading Time for Zero Error | Valentine Kabanets | Journal of Computer and System Sciences | 2001 |
Derandomizing polynomial identity tests means proving circuit lower bounds | Valentine Kabanets Russell Impagliazzo | Computational Complexity | 2004 |
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 |
Holevo's bound from a general quantum fluctuation theorem | Dvir Kafri Sebastian Deffner | Physical Review A - Atomic, Molecular, and Optical Physics | 2012 |
Large Deviation Bounds for Markov Chains | Nabil Kahale | Combinatorics Probability and Computing | 1997 |
Modelling the development of cortical systems networks | Marcus Kaiser Claus C. Hilgetag | Neurocomputing | 2004 |
Nonoptimal component placement, but short processing paths, due to long-distance projections in neural systems | Marcus Kaiser Claus C. Hilgetag | PLoS Computational Biology | 2006 |
A simple rule for axon outgrowth and synaptic competition generates realistic connection lengths and filling fractions | Marcus Kaiser Claus C. Hilgetag Arjen Van Ooyen | Cerebral Cortex | 2009 |
The berg-purcell limit revisited | Kazunari Kaizu Wiet De Ronde Joris Paijmans Koichi Takahashi Filipe Tostevin Pieter Rein ten Wolde | Biophysical Journal | 2014 |
Analyzing molecular reaction networks: From pathways to chemical organizations | Christoph Kaleta Florian Centler Peter Dittrich | Molecular Biotechnology | 2006 |
Stochastic energetics for non-Gaussian processes | Kiyoshi Kanazawa Takahiro Sagawa Hisao Hayakawa | Physical Review Letters | 2012 |
Profiling a Warehouse-Scale Computer | Svilen Kanev Juan Pablo Darago Kim Hazelwood Parthasarathy Ranganathan Tipp Moseley Gu Yeon Wei David Brooks | IEEE Micro | 2016 |
Global and regional brain metabolic scaling and its functional consequences | Jan Karbowski | BMC Biology | 2007 |
Monotone Circuits for Connectivity Require Super-Logarithmic Depth | Mauricio Karchmer Avi Wigderson | SIAM Journal on Discrete Mathematics | 1990 |
A new polynomial-time algorithm for linear programming | N. Karmarkar | Combinatorica | 1984 |
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 |
Compartmental organization of the olfactory bulb glomerulus | Hahnah J. Kasowski Hanna Kim Charles A. Greer | Journal of Comparative Neurology | 1999 |
Heterochromatin formation involves changes in histone modifications over multiple cell generations | Yael Katan-Khaykovich Kevin Struhl | EMBO Journal | 2005 |
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 |
Gene expression of Caenorhabditis elegans neurons carries information on their synaptic connectivity | Alon Kaufman Gideon Dror Isaac Meilijson Eytan Ruppin | PLoS Computational Biology | 2006 |
Efficiency of free energy transduction in autonomous systems | Kyogo Kawaguchi Masaki Sano | Journal of the Physical Society of Japan | 2011 |
Two subtypes of non-pyramidal cells in rat hippocampal formation identified by intracellular recording and HRP injection | Yasuo Kawaguchi Kiyoshi Hama | Brain Research | 1987 |
Synthetic molecular motors and mechanical machines | Euan R. Kay David A. Leigh Francesco Zerbetto | Angewandte Chemie - International Edition | 2007 |
Drivers of bacterial maintenance and minimal energy requirements | Peter M. van Bodegom David Wolpert Eric Libby Jan Amend Tori Hoehler Chris Kempes | Frontiers in Microbiology | 2017 |
Evolutionary tradeoffs in cellular composition across diverse bacteria | Lawrence Wang Jan P. Amend John Doyle Tori Hoehler Chris Kempes | ISME Journal | 2016 |
Spontaneously emerging cortical representations of visual attributes | Tal Kenet Dmitri Bibitchkov Misha Tsodyks Amiram Grinvald Amos Arieli | Nature | 2003 |
On boolean decision trees with faulty nodes | Claire Kenyon Valerie King | Random Structures & Algorithms | 1994 |
The sniff as a unit of olfactory processing | Adam Kepecs Naoshige Uchida Zachary F. Mainen | Chemical Senses | 2006 |
Irreversibility-to-reversibility crossover in transient response of an optically trapped particle | Manas Khan A. K. Sood | EPL | 2011 |
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 |
Vertex cover might be hard to approximate to within 2 - ε | Subhash Khot Oded Regev | Journal of Computer and System Sciences | 2008 |
Topology of cosmic domains and strings | T. W.B. Kibble | Journal of Physics A: General Physics | 1976 |
Fluctuation theorems for a molecular refrigerator | Kyung Hyuk Kim Hong Qian | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2007 |
Architecture and Statistical Model of a Pulse-Mode Digital Multilayer Neural Network | Young Chul Kim Michael A. Shanblatt | IEEE Transactions on Neural Networks | 1995 |
Quantum szilard engine | Sang Wook Kim Takahiro Sagawa Simone De Liberato Masahito Ueda | Physical Review Letters | 2011 |
Construction of an in vitro bistable circuit from synthetic transcriptional switches | Jongmin Kim Kristin S. White Erik Winfree | Molecular Systems Biology | 2006 |
Synthetic in vitro transcriptional oscillators | Jongmin Kim Erik Winfree | Molecular Systems Biology | 2011 |
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 |
Postnatal development of olfactory receptor cell axonal arbors | Jason R. Klenoff Charles A. Greer | Journal of Comparative Neurology | 1998 |
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 |
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 |