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From Thermodynamics of Computation
Author name | Source name | Year | Keyword | |
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An efficient 10GBASE-T ethernet LDPC decoder design with low error floors | Zhengya Zhang Venkat Anantharam Martin J. Wainwright Borivoje Nikolić | IEEE Journal of Solid-State Circuits | 2010 | Error floors Iterative decoder architecture Low-density parity-check (LDPC) code Message-passing decoding Post-processing |
Minimal energy requirements in communication | Rolf Landauer | Science | 1996 | |
Engineering aspects of enzymatic signal transduction: Photoreceptors in the retina | Peter B. Detwiler Sharad Ramanathan Anirvan Sengupta Boris I. Shraiman | Biophysical Journal | 2000 | |
Age-related alterations in the modular organization of structural cortical network by using cortical thickness from MRI | Zhang J. Chen Yong He Pedro Rosa-Neto Gaolang Gong Alan C. Evans | NeuroImage | 2011 | |
Cerebellar LTD and Pattern Recognition by Purkinje Cells | Volker Steuber Wolfgang Mittmann Freek E. Hoebeek R. Angus Silver Chris I. De Zeeuw Michael Häusser Erik De Schutter | Neuron | 2007 | MOLNEURO SYSBIO SYSNEURO |
Experimental test of the fluctuation theorem for a driven two-level system with time-dependent rates | S. Schuler T. Speck C. Tietz J. Wrachtrup Udo Seifert | Physical Review Letters | 2005 | |
Targeting olfaction | Peter Mombaerts | Current Opinion in Neurobiology | 1996 | |
Genetic networks: Small numbers of big molecules | Nina Fedoroff Walter Fontana | Science | 2002 | |
Does replication‐induced transcription regulate synthesis of the myriad low copy number proteins of Escherichia coli? | Purnananda Guptasarma | BioEssays | 1995 | |
Diffusion of transcription factors can drastically enhance the noise in gene expression | Jeroen S. Van Zon Marco J. Morelli Sorin Tǎnase-Nicola Pieter Rein ten Wolde | Biophysical Journal | 2006 | |
Mutual information between input and output trajectories of biochemical networks | Filipe Tostevin Pieter Rein ten Wolde | Physical Review Letters | 2009 | |
Stochastic thermodynamics of chemical reaction networks | Tim Schmiedl Udo Seifert | Journal of Chemical Physics | 2007 | |
Thermodynamics of prediction | Susanne Still David A. Sivak Anthony J. Bell Gavin Crooks | Physical Review Letters | 2012 | |
The Stokes efficiency for molecular motors and its applications | Hongyun Wang G. Oster | Europhysics Letters | 2002 | |
Fifty years of the VSEPR model | R. J. Gillespie | Coordination Chemistry Reviews | 2008 | LCP model: Lone pairs Molecular geometry VSEPR model |
Asymmetric division of Drosophila male germline stem cell shows asymmetric histone distribution | Vuong Tran Cindy Lim Jing Xie Xin Chen | Science | 2012 | |
A stochastic-based FPGA controller for an induction motor drive with integrated neural network algorithms | Da Zhang Hui Li | IEEE Transactions on Industrial Electronics | 2008 | Antiwindup proportional-integral (PI) controller Field-programmable gate array (FPGA) Induction motor drive Motor drive control Neural network (NN) algorithms Stochastic theory Very high speed integrated circuit (VHSIC) hardware description language (VHDL) |
Principles underlying mammalian neocortical scaling | Mark A. Changizi | Biological Cybernetics | 2001 | |
Wiring economy and volume exclusion determine neuronal placement in the Drosophila brain | Marta Rivera-Alba Shiv N. Vitaladevuni Yuriy Mischenko Zhiyuan Lu Shin Ya Takemura Lou Scheffer Ian A. Meinertzhagen Dmitri B. Chklovskii Gonzalo G. De Polavieja | Current Biology | 2011 | |
Steady state thermodynamics | Y Oono Paniconi M 1998 | Theor. Phys. Suppl | 2006 | Fluctuation Nonequilibrium steady state Thermodynamics |
A fluctuation theorem for currents and non-linear response coefficients | David Andrieux Pierre Gaspard | Journal of Statistical Mechanics: Theory and Experiment | 2007 | Current fluctuations Exact results Stationary states (theory) |
Stochastic theory of nonequilibrium steady states. Part II: Applications in chemical biophysics | Hao Ge Min Qian Hong Qian | Physics Reports | 2012 | Bistability Enzyme kinetics Fluctuating enzyme Gene regulatory network Kinetic proofreading Signaling network Zeroth-order ultrasensitivity |
Universal features in the energetics of symmetry breaking | É Roldán I. A. Martínez J. M.R. Parrondo D. Petrov | Nature Physics | 2014 | |
Multivariate information transmission | William J. McGill | IRE Professional Group on Information Theory | 1954 | |
Patterns and mechanisms of Ancestral Histone protein inheritance in Budding yeast | Marta Radman-Livaja Kitty F. Verzijlbergen Assaf Weiner Tibor van Welsem Nir Friedman Oliver J. Rando Fred van Leeuwen | PLoS Biology | 2011 | |
Experimental validation of free-energy-landscape reconstruction from non-equilibrium single-molecule force spectroscopy measurements | Amar Nath Gupta Abhilash Vincent Krishna Neupane Hao Yu Feng Wang Michael T. Woodside | Nature Physics | 2011 | |
Histone H3 tail clipping regulates gene expression | Helena Santos-Rosa Antonis Kirmizis Christopher Nelson Till Bartke Nehme Saksouk Jacques Cote Tony Kouzarides | Nature Structural and Molecular Biology | 2009 | |
Application-level correctness and its impact on fault tolerance | Xuanhua Li Donald Yeung | Proceedings - International Symposium on High-Performance Computer Architecture | 2007 | |
Maxwell's demon assisted thermodynamic cycle in superconducting quantum circuits | H. T. Quan Y. D. Wang Yu Xi Liu C. P. Sun Franco Nori | Physical Review Letters | 2006 | |
Specific subtypes of cortical GABA interneurons contribute to the neurovascular coupling response to basal forebrain stimulation | Ara Kocharyan Priscilla Fernandes Xin Kang Tong Elvire Vaucher Edith Hamel | Journal of Cerebral Blood Flow and Metabolism | 2008 | Cerebral blood vessel Cholinergic lesion Cortical interneuron Hemodynamic response Inhibitory interneuron Microvessel |
Stochastic signal processing and transduction in chemotactic response of eukaryotic cells | Masahiro Ueda Tatsuo Shibata | Biophysical Journal | 2007 | |
Grid cells generate an analog error-correcting code for singularly precise neural computation | Sameet Sreenivasan Ila Fiete | Nature Neuroscience | 2011 | |
Cerebellar Golgi cells in the rat: Receptive fields and timing of responses to facial stimulation | Bart P. Vos Antonia Volny-Luraghi Erik De Schutter | European Journal of Neuroscience | 1999 | Cerebellum Inhibitory interneurons Mossy fibre Parallel fibre Somatosensory system Trigeminal stimulation |
Efficiency of autonomous soft nanomachines at maximum power | Udo Seifert | Physical Review Letters | 2011 | |
Feedback control in a collective flashing ratchet | Francisco J. Cao Luis Dinis Juan M.R. Parrondo | Physical Review Letters | 2004 | |
A new notation for quantum mechanics | P. A.M. Dirac | Mathematical Proceedings of the Cambridge Philosophical Society | 1939 | |
Systematic errors in free energy perturbation calculations due to a finite sample of configuration space: Sample-size hysteresis | Robert H. Wood Wolfgang C.F. Mühlbauer Peter T. Thompson | Journal of Physical Chemistry | 1991 | |
The chromatin code of fungal secondary metabolite gene clusters | Agnieszka Gacek Joseph Strauss | Applied Microbiology and Biotechnology | 2012 | Aspergillus Chromatin Histone modifications Secondary metabolism |
Classical and quantum limitations on energy consumption in computation | K. K. Likharev | International Journal of Theoretical Physics | 1982 | |
Delayed stochastic decoding of LDPC codes | Ali Naderi Shie Mannor Mohamad Sawan Warren J. Gross | IEEE Transactions on Signal Processing | 2011 | Delayed stochastic decoding iterative decoding low-density parity-check code stochastic decoding |
Relationship between subsistence and age at weaning in "preindustrial" societies | Daniel W. Sellen Diana B. Smay | Human Nature | 2001 | Agriculture Breastfeeding Childcare Comparative method Cross-cultural studies Cultural evolution Horticulture Hunter-gatherers Pastoralists Weanling's dilemma Women's work |
Extracting work from a single heat bath through feedback | D. Abreu Udo Seifert | EPL | 2011 | |
Calcium, the two-faced messenger of olfactory transduction and adaptation | Hugh R. Matthews Johannes Reisert | Current Opinion in Neurobiology | 2003 | |
Calcium signalling and regulation in olfactory neurons | Anna Menini | Current Opinion in Neurobiology | 1999 | |
Experimental Verification of a Modified Fluctuation-Dissipation Relation for a Micron-Sized Particle in a Nonequilibrium Steady State | J. R. Gomez-Solano A. Petrosyan S. Ciliberto R. Chetrite K. Gawȩdzki | Physical Review Letters | 2009 | |
Programmable energy landscapes for kinetic control of DNA strand displacement | Thomas E. Ouldridge Jonathan Bath Andrew J. Turberfield Robert R.F. Machinek Natalie E.C. Haley | Nature Communications | 2014 | |
Stochasticity of gene products from transcriptional pulsing | Srividya Iyer-Biswas F. Hayot C. Jayaprakash | Physical Review E - Statistical, Nonlinear, and Soft Matter Physics | 2009 | |
Towards kinetic modeling of genome-scale metabolic networks without sacrificing stoichiometric, thermodynamic and physiological constraints | Anirikh Chakrabarti Ljubisa Miskovic Keng Cher Soh Vassily Hatzimanikatis | Biotechnology Journal | 2013 | Elasticity Mass action Saturation Stability Thermodynamics |
Chemical kinetics is turing universal | Marcelo O. Magnasco | Physical Review Letters | 1997 | |
Local potential connectivity in cat primary visual cortex | Armen Stepanyants Judith A. Hirsch Luis M. Martinez Zoltán F. Kisvárday Alex S. Ferecskó Dmitri B. Chklovskii | Cerebral Cortex | 2008 | Excitatory Inhibitory Interlaminar connectivity Morphology Neurogeometry |