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Thermodynamics of Computation

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From Thermodynamics of Computation
 Author nameSource nameYear
Necessary and sufficient conditions for complex balancing in chemical kineticsF. HornArchive for Rational Mechanics and Analysis1972
Self-regulating gene: An exact solutionJ. 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 Physics2005
Comparison of work fluctuation relationsJordan Horowitz
Christopher Jarzynski
Journal of Statistical Mechanics: Theory and Experiment2007
Thermodynamic reversibility in feedback processesJordan M. Horowitz
Juan M.R. Parrondo
EPL2011
Thermodynamics: A stirling effortJordan M. Horowitz
Juan M.R. Parrondo
Nature Physics2012
Optimizing non-ergodic feedback enginesJordan M. Horowitz
Juan M.R. Parrondo
Acta Physica Polonica B2013
Thermodynamics with continuous information flowJordan M. Horowitz
Massimiliano Esposito
Physical Review X2014
Nonequilibrium detailed fluctuation theorem for repeated discrete feedbackJordan M. Horowitz
Suriyanarayanan Vaikuntanathan
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2010
Designing optimal discrete-feedback thermodynamic enginesJordan M. Horowitz
Juan M.R. Parrondo
New Journal of Physics2011
Second-law-like inequalities with information and their interpretationsJordan M. Horowitz
Henrik Sandberg
New Journal of Physics2014
Imitating chemical motors with optimal information motorsJordan M. Horowitz
Takahiro Sagawa
Juan M.R. Parrondo
Physical Review Letters2013
Parallel simulation of compressible flow using automatic differentiation and PETScPaul D. Hovland
Lois C. McInnes
Parallel Computing2001
Effects of reservoir squeezing on quantum systems and work extractionX. L. Huang
Tao Wang
X. X. Yi
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2012
Fast-growth thermodynamic integration: Error and efficiency analysisG. HummerJournal of Chemical Physics2001
Reversible Quantum Brownian Heat Engines for ElectronsT. E. Humphrey
R. Newbury
R. P. Taylor
H. Linke
Physical Review Letters2002
Reversible thermoelectric nanomaterialsT. E. Humphrey
H. Linke
Physical Review Letters2005
Work and heat probability distributions in out-of-equilibrium systemsAlberto Imparato
Luca Peliti
Comptes Rendus Physique2007
Fluctuation relations for a driven Brownian particleA. Imparato
L. Peliti
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2006
The distribution function of entropy flow in stochastic systemsA. Imparato
L. Peliti
Journal of Statistical Mechanics: Theory and Experiment2007
Probability density functions of work and heat near the stochastic resonance of a colloidal particleAlberto Imparato
Pierre Jop
Artyom Petrosyan
Sergio Ciliberto
Journal of Statistical Mechanics: Theory and Experiment2008
Reconstructing the free-energy landscape of a mechanically unfolded model proteinAlberto Imparato
Stefano Luccioli
Alessandro Torcini
Physical Review Letters2007
Work and heat probability distribution of an optically driven Brownian particle: Theory and experimentsA. Imparato
L. Peliti
G. Pesce
G. Rusciano
A. Sasso
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2007
Workshop report:Modeling the molecularmechanism of bacterial spore germination and elucidating reasons for germination heterogeneityKarl J. Indest
Wallace G. Buchholz
Jim R. Faeder
Peter Setlow
Journal of Food Science2009
Costs of encephalization: the energy trade-off hypothesis tested on birdsKarin Isler
Carel van Schaik
Journal of Human Evolution2006
Stochastic equations in black hole backgrounds and non-equilibrium fluctuation theoremsSatoshi Iso
Susumu Okazawa
Nuclear Physics B2011
Information thermodynamics on causal networksSosuke Ito
Takahiro Sagawa
Physical Review Letters2013
Maxwell's demon in biochemical signal transduction with feedback loopSosuke Ito
Takahiro Sagawa
Nature Communications2015
Pushing the limits of lithographyTakashi Ito
Shinji Okazaki
Nature2000
Study of stochastic resonance by method of stochastic energeticsToshiya IwaiPhysica A: Statistical Mechanics and its Applications2001
Stochasticity of gene products from transcriptional pulsingSrividya Iyer-Biswas
F. Hayot
C. Jayaprakash
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2009
Molecular kinetic analysis of a finite-time Carnot cycleY. Izumida
K. Okuda
EPL2008
Onsager coefficients of a Brownian Carnot cycleY. Izumida
K. Okuda
European Physical Journal B2010
Histone Segregation on Replicating Chromatinâ€Vaughn Jackson
Roger Chalkley
Biochemistry1985
Histone Segregation on Replicating Chromatin†Vaughn Jackson
Roger Chalkley
Biochemistry1985
Second law of thermodynamics and quantum feedback control: Maxwell’s demon with weak measurementsKurt JacobsPhysical Review A - Atomic, Molecular, and Optical Physics2009
Structure and function of a human TAF(II)250 double bromodomain moduleRaymond H. Jacobson
Andreas G. Ladurner
David S. King
Robert Tjian
Science2000
Stretching the limits of clock-gating efficiency in server-class processorsHans 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 Architecture2005
Role of Astrocytes in Matching Blood Flow to Neuronal ActivityDanica Jakovcevic
David R. Harder
Current Topics in Developmental Biology2007
Equilibrium free-energy differences from nonequilibrium measurements: A master-equation approachC. JarzynskiPhysical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics1997
Nonequilibrium equality for free energy differencesC. JarzynskiPhysical Review Letters1997
Comparison of far-from-equilibrium work relationsChristopher JarzynskiComptes Rendus Physique2007
Nonequilibrium work theorem for a system strongly coupled to a thermal environmentChris JarzynskiJournal of Statistical Mechanics: Theory and Experiment2004
Rare events and the convergence of exponentially averaged work valuesChristopher JarzynskiPhysical Review E - Statistical, Nonlinear, and Soft Matter Physics2006
Lag inequality for birth-death processes with time-dependent ratesChristopher JarzynskiJournal of Physics A: Mathematical and General2005
Equalities and Inequalities: Irreversibility and the Second Law of Thermodynamics at the NanoscaleChristopher JarzynskiAnnual Review of Condensed Matter Physics2011
Classical and quantum fluctuation theorems for heat exchangeChristopher Jarzynski
Daniel K. Wójcik
Physical Review Letters2004
Generating Binary Sequences for Stochastic ComputingP. Jeavons
D. A. Cohen
J. Shawe-Taylor
IEEE Transactions on Information Theory1994
Translating the histone codeT. Jenuwein
C. D. Allis
Science2001
Nucleosome positioning and gene regulation: Advances through genomicsCizhong Jiang
B. Franklin Pugh
Nature Reviews Genetics2009
Asynchronous computation with molecular reactionsHua Jiang
Marc D. Riedel
Keshab K. Parhi
Conference Record - Asilomar Conference on Signals, Systems and Computers2011
Effective temperatures of a heated Brownian particleL. Joly
S. Merabia
J. L. Barrat
EPL2011
An efficient graph theory based method to identify every minimal reaction set in a metabolic networkSudhakar Jonnalagadda
Rajagopalan Srinivasan
BMC Systems Biology2014
Work and dissipation fluctuations near the stochastic resonance of a colloidal particleP. Jop
A. Petrosyan
S. Ciliberto
EPL2008
Work fluctuations in a nematic liquid crystalS. Joubaud
G. Huillard
A. Petrosyan
S. Ciliberto
Journal of Statistical Mechanics: Theory and Experiment2009
Fluctuations of the total entropy production in stochastic systemsS. Joubaud
N. B. Garnier
S. Ciliberto
EPL2008
Fluctuation theorems for an asymmetric rotor in a granular gasSylvain Joubaud
Detlef Lohse
Devaraj Van Der Meer
Physical Review Letters2012
The energy expansions of evolutionOlivia P. JudsonNature Ecology and Evolution2017
High-precision test of Landauer's principle in a feedback trapYonggun Jun
Momčilo Gavrilov
John Bechhoefer
Physical Review Letters2014
TRNAdb 2009: Compilation of tRNA sequences and tRNA genesFrank Jühling
Mario Mörl
Roland K. Hartmann
Mathias Sprinzl
Joern Pütz
Peter Stadler
Nucleic Acids Research2009
Easiness Assumptions and Hardness Tests: Trading Time for Zero ErrorValentine KabanetsJournal of Computer and System Sciences2001
Derandomizing polynomial identity tests means proving circuit lower boundsValentine Kabanets
Russell Impagliazzo
Computational Complexity2004
On the shoulders of giants: Properties of the stellar halo and the milky way mass distributionPrajwal Raj Kafle
Sanjib Sharma
Geraint F. Lewis
Joss Bland-Hawthorn
Astrophysical Journal2014
Holevo's bound from a general quantum fluctuation theoremDvir Kafri
Sebastian Deffner
Physical Review A - Atomic, Molecular, and Optical Physics2012
Large Deviation Bounds for Markov ChainsNabil KahaleCombinatorics Probability and Computing1997
Modelling the development of cortical systems networksMarcus Kaiser
Claus C. Hilgetag
Neurocomputing2004
Nonoptimal component placement, but short processing paths, due to long-distance projections in neural systemsMarcus Kaiser
Claus C. Hilgetag
PLoS Computational Biology2006
A simple rule for axon outgrowth and synaptic competition generates realistic connection lengths and filling fractionsMarcus Kaiser
Claus C. Hilgetag
Arjen Van Ooyen
Cerebral Cortex2009
The berg-purcell limit revisitedKazunari Kaizu
Wiet De Ronde
Joris Paijmans
Koichi Takahashi
Filipe Tostevin
Pieter Rein ten Wolde
Biophysical Journal2014
Analyzing molecular reaction networks: From pathways to chemical organizationsChristoph Kaleta
Florian Centler
Peter Dittrich
Molecular Biotechnology2006
Stochastic energetics for non-Gaussian processesKiyoshi Kanazawa
Takahiro Sagawa
Hisao Hayakawa
Physical Review Letters2012
Profiling a Warehouse-Scale ComputerSvilen Kanev
Juan Pablo Darago
Kim Hazelwood
Parthasarathy Ranganathan
Tipp Moseley
Gu Yeon Wei
David Brooks
IEEE Micro2016
Global and regional brain metabolic scaling and its functional consequencesJan KarbowskiBMC Biology2007
Monotone Circuits for Connectivity Require Super-Logarithmic DepthMauricio Karchmer
Avi Wigderson
SIAM Journal on Discrete Mathematics1990
A new polynomial-time algorithm for linear programmingN. KarmarkarCombinatorica1984
Reducibility among combinatorial problemsRichard M. Karp50 Years of Integer Programming 1958-2008: From the Early Years to the State-of-the-Art2010
Compartmental organization of the olfactory bulb glomerulusHahnah J. Kasowski
Hanna Kim
Charles A. Greer
Journal of Comparative Neurology1999
Heterochromatin formation involves changes in histone modifications over multiple cell generationsYael Katan-Khaykovich
Kevin Struhl
EMBO Journal2005
A C. elegans LSD1 Demethylase Contributes to Germline Immortality by Reprogramming Epigenetic MemoryDavid J. Katz
T. Matthew Edwards
Valerie Reinke
William G. Kelly
Cell2009
Gene expression of Caenorhabditis elegans neurons carries information on their synaptic connectivityAlon Kaufman
Gideon Dror
Isaac Meilijson
Eytan Ruppin
PLoS Computational Biology2006
Efficiency of free energy transduction in autonomous systemsKyogo Kawaguchi
Masaki Sano
Journal of the Physical Society of Japan2011
Two subtypes of non-pyramidal cells in rat hippocampal formation identified by intracellular recording and HRP injectionYasuo Kawaguchi
Kiyoshi Hama
Brain Research1987
Synthetic molecular motors and mechanical machinesEuan R. Kay
David A. Leigh
Francesco Zerbetto
Angewandte Chemie - International Edition2007
Drivers of bacterial maintenance and minimal energy requirementsPeter M. van Bodegom
David Wolpert
Eric Libby
Jan Amend
Tori Hoehler
Chris Kempes
Frontiers in Microbiology2017
Evolutionary tradeoffs in cellular composition across diverse bacteriaLawrence Wang
Jan P. Amend
John Doyle
Tori Hoehler
Chris Kempes
ISME Journal2016
Spontaneously emerging cortical representations of visual attributesTal Kenet
Dmitri Bibitchkov
Misha Tsodyks
Amiram Grinvald
Amos Arieli
Nature2003
On boolean decision trees with faulty nodesClaire Kenyon
Valerie King
Random Structures & Algorithms1994
The sniff as a unit of olfactory processingAdam Kepecs
Naoshige Uchida
Zachary F. Mainen
Chemical Senses2006
Irreversibility-to-reversibility crossover in transient response of an optically trapped particleManas Khan
A. K. Sood
EPL2011
The unique games conjecture, integrality gap for cut problems and embeddability of negative type metrics into l 1Subhash A. Khot
Nisheeth K. Vishnoi
Proceedings - Annual IEEE Symposium on Foundations of Computer Science, FOCS2005
Vertex cover might be hard to approximate to within 2 - εSubhash Khot
Oded Regev
Journal of Computer and System Sciences2008
Topology of cosmic domains and stringsT. W.B. KibbleJournal of Physics A: General Physics1976
Fluctuation theorems for a molecular refrigeratorKyung Hyuk Kim
Hong Qian
Physical Review E - Statistical, Nonlinear, and Soft Matter Physics2007
Architecture and Statistical Model of a Pulse-Mode Digital Multilayer Neural NetworkYoung Chul Kim
Michael A. Shanblatt
IEEE Transactions on Neural Networks1995
Quantum szilard engineSang Wook Kim
Takahiro Sagawa
Simone De Liberato
Masahito Ueda
Physical Review Letters2011
Construction of an in vitro bistable circuit from synthetic transcriptional switchesJongmin Kim
Kristin S. White
Erik Winfree
Molecular Systems Biology2006
Synthetic in vitro transcriptional oscillatorsJongmin Kim
Erik Winfree
Molecular Systems Biology2011
End of Moore's law: Thermal (noise) death of integration in micro and nano electronicsLaszlo B. KishPhysics Letters, Section A: General, Atomic and Solid State Physics2002
Postnatal development of olfactory receptor cell axonal arborsJason R. Klenoff
Charles A. Greer
Journal of Comparative Neurology1998
An analytical solution to the kinetics of breakable filament assemblyChristopher 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
Science2009
How Much the Eye Tells the BrainKristin Koch
Judith McLean
Ronen Segev
Michael A. Freed
Michael J. Berry
Vijay Balasubramanian
Peter Sterling
Current Biology2006