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Sethna, James Patarasp
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- Professor, Physics (PHYS), College of Arts and Sciences
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Affiliations
Research
research overview
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- Materials science, including crackling noise and avalanches in magnetic systems, tweed in shape-memory alloys, accelerated simulations of surface growth, Arrhenius law for double jumps
- Glasses, including metallic glasses, low temperature glasses, slow relaxation, and scaling theories of the glass transition
- Disordered systems, including Griffiths phase in spin glasses, spin glasses on the Bethe lattice, sliding charge-density waves
- Liquid crystals
- Blue Phases as networks of defect lines and in curved space
- Boojums in chiral smectic films
- Quantum instanton methods for atomic tunneling
- Early Berry's phase work in high-temperature superconductors
- Atomic tunneling from an STM/AFM tip
- Theory of vortex core states in superconductors
- Dynamical systems, including transition to chaos from quasiperiodic motion using renormalization group
- Noise in crumpling paper.
principal investigator on
- CDI-TYPE II: KNOWLEDGE-BASE OF INTERATOMIC MODELS (KIM) awarded by NATL SCIENCE FOUNDATION 2009 - 2013
- DEFORMED MATERIALS: TOWARDS A THEORY OF MATERIALS MORPHOLOGY DYNAMICS: PRIOR TITLE: CONTINUUM PLASTICITY: FROM GRAIN BOUNDARIES AND COARSENING TO CELLULAR STRUCTURES AND RECRYSTALLIZATION awarded by DEPARTMENT OF ENERGY 2007 - 2013
- EXTRACTING THEORY FROM DATA: MAGNETS, HIGH TC SUPERCONDUCTORS AND SLOPPY MODELS awarded by DIRECTORATE FOR MATHEMATICAL & PHYSICAL SCIENCES NSF 2010 - 2012
co-principal investigator on
- CENTER ON THE MICROENVIRONMENT AND METASTASIS awarded by NATL CANCER INSTITUTE, NIH 2009 - 2014
Publications
individual publications
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academic article
- Scaling theory of continuum dislocation dynamics in three dimensions: Self-organized fractal pattern formation. International Journal of Plasticity. 46:94-129. 2013
- From Damage Percolation to Crack Nucleation Through Finite Size Criticality. Physical Review Letters. 110. 2013
- Critical Droplet Theory Explains the Glass Formability of Aqueous Solutions. Physical Review Letters. 110. 2013
- Critical Casimir Forces in Cellular Membranes. Physical Review Letters. 109. 2012
- Structural susceptibility and separation of time scales in the van der Pol oscillator. Physical Review E. 86. 2012
- Fracture Strength of Disordered Media: Universality, Interactions, and Tail Asymptotics. Physical Review Letters. 108. 2012
- Senescent Cells in Growing Tumors: Population Dynamics and Cancer Stem Cells. Plos Computational Biology. 8. 2012
- Is Dislocation Flow Turbulent in Deformed Crystals?. Computing in Science and Engineering. 14:33-39. 2012
- Dielectric Breakdown and Avalanches at Nonequilibrium Metal-Insulator Transitions. Physical Review Letters. 107. 2011
- Avalanche spatial structure and multivariable scaling functions: Sizes, heights, widths, and views through windows. Physical Review E. 84. 2011
- Challenges in Continuum Modelling of Intergranular Fracture. Strain. 47:99-104. 2011
- The potential of atomistic simulations and the knowledgebase of interatomic models. JOM. 63:17. 2011
- Nucleation at the DNA supercoiling transition. Physical Review E. 83. 2011
- Minimal Model of Plasma Membrane Heterogeneity Requires Coupling Cortical Actin to Criticality. Biophysical Journal. 100:1668-1677. 2011
- Superheating field of superconductors within Ginzburg-Landau theory. Physical Review B. 83. 2011
- Geometry of nonlinear least squares with applications to sloppy models and optimization. Physical Review E. 83. 2011
- Challenges in Continuum Modeling of Intergranular Fracture. Strain. 47:99-104. 2011
- Bending Crystals: Emergence of Fractal Dislocation Structures. Physical Review Letters. 105. 2010
- Why are Nonlinear Fits to Data so Challenging?. Physical Review Letters. 104. 2010
- Discontinuities at the DNA supercoiling transition. Physical Review E. 80. 2009
- Visualization of avalanches in magnetic thin films: temporal processing. Journal of Statistical Mechanics: Theory and Experiment. 2009. 2009
- Temperature dependence of the superheating field for superconductors in the high- κ London limit. Physical Review B. 78. 2008
- Variational method for estimating the rate of convergence of Markov-chain Monte Carlo algorithms. Physical Review E. 78. 2008
- Anomalous Conductance Oscillations and Half-Metallicity in Atomic Ag-O Chains. Physical Review Letters. 101. 2008
- Sloppiness, robustness, and evolvability in systems biology. Current Opinion in Biotechnology. 19:389-395. 2008
- Grain boundary energies and cohesive strength as a function of geometry. Physical Review B. 77. 2008
- Abrupt Buckling Transition Observed during the Plectoneme Formation of Individual DNA Molecules. Physical Review Letters. 100. 2008
- Shocks and slip systems: Predictions from a mesoscale theory of continuum dislocation dynamics. Journal of Mechanics and Physics of Solids. 56:1450-1459. 2008
- Extracting Falsifiable Predictions from Sloppy Models. Annals of the New York Academy of Sciences. 1115:203-211. 2007
- Universally Sloppy Parameter Sensitivities in Systems Biology Models. Plos Computational Biology. 3. 2007
- Phonons and conduction in molecular quantum dots: Density functional calculations of Franck-Condon emission rates for bifullerenes in external fields. Physical Review B. 76. 2007
- Stress-free states of continuum dislocation fields: Rotations, grain boundaries, and the Nye dislocation density tensor. Physical Review B. 75. 2007
- Optimal experimental design in an epidermal growth factor receptor signalling and down-regulation model. IET Systems Biology. 1:190-202. 2007
- Python Unleashed on Systems Biology. Computing in Science & Engineering. 9:34-37. 2007
- Python for Education: Computational Methods for Nonlinear Systems. Computing in Science & Engineering. 9:75-79. 2007
- Sloppy-Model Universality Class and the Vandermonde Matrix. Physical Review Letters. 97. 2006
- Mesoscale Theory of Grains and Cells: Crystal Plasticity and Coarsening. Physical Review Letters. 96. 2006
- Bayesian Error Estimation in Density-Functional Theory. Physical Review Letters. 95. 2005
- Vibration-Assisted Electron Tunneling in C140 Transistors. Nano Letters. 5:203-207. 2005
- The statistical mechanics of complex signaling networks: nerve growth factor signaling. Physical Biology. 1. 2004
- Bayesian Ensemble Approach to Error Estimation of Interatomic Potentials. Physical Review Letters. 93. 2004
- The statistical mechanics of complex signaling networks: nerve growth factor signaling. Physical Biology. 1. 2004
- Mean-field approaches to the totally asymmetric exclusion process with quenched disorder and large particles. Physical Review E. 70. 2004
- Continuum mesoscale theory inspired by plasticity. Europhysics Letters. 65. 2004
- Macroscopic measure of the cohesive length scale: Fracture of notched single-crystal silicon. Physical Review B. 68. 2003
- Wiring up single molecules. Thin Solid Films. 438-439:457-461. 2003
- Statistical mechanical approaches to models with many poorly known parameters. Physical Review E. 68. 2003
- Scaling in plasticity-induced cell-boundary microstructure: Fragmentation and rotational diffusion. Physical Review B. 76. 2003
- Kinetic Monte Carlo–molecular dynamics investigations of hyperthermal copper deposition on Cu(111). Physical Review B. 66. 2002
- Enhanced mesoscopic fluctuations in the crossover between random-matrix ensembles. Physical Review B. 66. 2002
- Universal pulse shape scaling function and exponents: Critical test for avalanche models applied to Barkhausen noise. Physical Review E. 65. 2002
- Fracture in mode I using a conserved phase-field model. Physical Review E. 65. 2002
- Dislocation mobility in two-dimensional Lennard–Jones material. Materials Science and Engineering A. 309-310:152-155. 2001
- Hysteresis and avalanches: phase transitions and critical phenomena in driven disordered systems. Journal of Magnetism and Magnetic Materials. 226-230:1287-1292. 2001
- Calculation of Quantum Tunneling for a Spatially Extended Defect: The Dislocation Kink in Copper Has a Low Effective Mass. Physical Review Letters. 86. 2001
- Subloops, Barkhausen noise, and disorder induced critical behavior. Journal of Applied Physics. 89. 2001
- Noise in disordered systems: The power spectrum and dynamic exponents in avalanche models. Physical Review B. 62. 2000
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article
- Quasi-periodic events in crystal plasticity and the self-organized avalanche oscillator. Nature. 490:517-521. 2012
- Universality beyond power laws and the average avalanche shape. Nature Physics. 7:316-320. 2011
- Intra-unit-cell electronic nematicity of the high-Tc copper-oxide pseudogap states. Nature. 466:347-351. 2010
- Crackling Wires. Science. 318:207 -208. 2007
- Crackling crossover. Nature Physics. 3:518-519. 2007
- Coulomb blockade and the Kondo effect in single-atom transistors. Nature. 417:722-725. 2002
- Crackling noise. Nature. 410:242 -250. 2001
selected publications listing
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"Avalanche visualization in magnetic thin films: temporal processing", Alessandro Magni, Gianfranco Durin, Stefano Zapperi, and James P. Sethna (submitted).
"Anomalous Conductance Oscillations and Half-Metallicity in Atomic Ag-O Chains", Mikkel Strange, Kristian S. Thygesen, James P. Sethna, and Karsten W. Jacobsen (submitted).
"Sloppiness, robustness, and evolvability in systems biology", Bryan C. Daniels, Yan-Jiun Chen, James P. Sethna, Ryan N. Gutenkunst, and Christopher R. Myers, Curr Opin Biotechnol (2008), doi:10.1016/j.copbio.2008.06.008, pdf.
"Abrupt Buckling Transition Observed during the Plectoneme Formation of Individual DNA Molecules", Scott Forth, Chris Deufel, Maxim Y. Sheinin, Bryan Daniels, James P. Sethna, and Michelle D. Wang, Physical Review Letters 100, 148301 (2008); (pdf).
"Avalanches through windows: multiscale visualization in magnetic thin films", Gianfranco Durin, Alessandro Magni, Stefano Zapperi, and James P. Sethna (submitted).
"A comparison of finite element and atomistic modelling of fracture", Valerie R Coffman, James P. Sethna, Gerd Heber, Mu Liu, Anthony Ingraffea, Nicholas P. Bailey, and Erin Iesulauro Barker, Modelling Simul. Mater. Eng. 16, 065008 (2008), doi:10.1088/0965-0393/16/1/065008, pdf.
"Adaptive Mutation in a Geometrical Model of Chemotype Evolution", Ryan N. Gutenkunst, James P. Sethna, (submitted).
"Crackling Wires", James P. Sethna, Science 318 (5848), 207-208 (12 October 2007), full text.
"Crackling Crossover", James P. Sethna, Nature Physics 3, 518-519 (2007).
"Grain Boundary Energies and Cohesive Strength as a Function of Geometry", Valerie R. Coffman and James P. Sethna, Phys. Rev. B 77, 144111 (2008). pdf
"Python Unleashed on Systems Biology", Christopher R. Myers, Ryan N. Gutenkunst, and James P. Sethna, Comput. Sci. Eng. 9, issue 3, p.34 (2007). pdf.
"Python for Education: Computational Methods for Nonlinear Systems", Christopher R. Myers, James P. Sethna, Comput. Sci. Eng. 9 issue 3, p.75 (2007). pdf.
"Extracting falsifiable predictions from sloppy models", Ryan N. Gutenkunst, Fergal P. Casey, Joshua J. Waterfall, Christopher R. Myers, James P. Sethna, in "Reverse Engineering Biological Networks: Opportunities and Challenges in Computational Methods for Pathway Inference", Annals of the New York Academy of Sciences 1115, 203-211 (2007), pdf.
"Universally Sloppy Parameter Sensitivities in Systems Biology", Ryan N. Gutenkunst, Joshua J. Waterfall, Fergal P. Casey, Kevin S. Brown, Christopher R. Myers, James P. Sethna, PLoS Comput Biol 3(10) e189 (2007). (PLoS, pdf). Reviewed in NewsBytes of Biomedical Computation Review (Winter 07/08).
"Crackling Noise and Avalanches: Scaling, Critical Phenomena, and the Renormalization Group", James P. Sethna, in Complex Systems, Volume LXXXV: Lecture Notes of the Les Houches Summer School 2006, edited by Jean-Philippe Bouchaud, Marc Mezard, and Jean Dalibard, Elsevier, Amsterdam, p. 257--288 (2007).
"Challenges in Continuum Modeling of Intergranular Fracture", Valerie Coffman and James P. Sethna (submitted).
"Shocks and slip systems: Predictions from a mesoscale theory of continuum dislocation dynamics", Surachate Limkumnerd and James P. Sethna, J. Mech. Phys. Solids (2007), doi:10.1016/j.jmps.2007.08.008, pdf.
"Optimal experimental design in an EGFR signaling and down-regulation model", Fergal P. Casey, Dan Baird, Qiyu Feng, Ryan N. Gutenkunst, Joshua J. Waterfall, Christopher R. Myers, Kevin S. Brown, Richard A. Cerione, and James P. Sethna, IET Systems Biology 1, 190-202 (2007) (pdf).
"Stress-free states of continuum dislocation fields: Rotations, grain boundaries, and the Nye dislocation density tensor", Surachate Limkumnerd and James P. Sethna, Phys. Rev. B 75, 224121 (2007) (pdf).
"Variational method for estimating the rate of convergence of Markov Chain Monte Carlo algorithms", Fergal P. Casey, Joshua J. Waterfall, Ryan N. Gutenkunst, Christopher R. Myers and James P. Sethna, (submitted).
"Digital Material: a flexible atomistic simulation code", Nicholas Bailey, Thierry Cretegny, James P. Sethna, Valerie R. Coffman, Andrew J. Dolgert, Christopher R. Myers, Jakob Schiotz, Jens Jorgen Mortensen (submitted).
"Sloppy model universality class and the Vandermonde matrix", Joshua J. Waterfall, Fergal P. Casey, Ryan N. Gutenkunst, Kevin S. Brown, Christopher R. Myers, Piet W. Brouwer, Veit Elser, and James P. Sethna, Phys. Rev. Letters 97, 150601 (2006), pdf, also selected for Virtual Journal of Biological Physics Research 12, (2006) (miscellaneous section).
"Phonon Overlaps: Polyacetylene, Polarons, and Molecular Size", Connie Te-ching Chang and James P. Sethna, (submitted).
"Phonons in Molecular Quantum Dots: Density Functional Calculation of Franck-Condon Emission Rates in External Fields", Connie Te-ching Chang, James P. Sethna, Abhay N. Pasupathy, J. Park, D.C. Ralph, and P.L. McEuen, Phys. Rev. B 76, 045435 (2007), pdf.
"Mesoscale theory of grains and cells: crystal plasticity and coarsening", Surachate Limkumnerd and James P. Sethna, Phys. Rev. Letters 96, 095503 (2006), pdf, also written up as news article in Science Magazine, "Theory of Shock Waves Clears Up the Puzzling Graininess of Crystals" Adrian Cho, Science 311, 1361 (2006).
"Bayesian Error Estimation in Density Functional Theory", J. J. Mortensen, K. Kaasbjerg, S. L. Frederiksen, J. K. Norskov, James P. Sethna, K. W. Jacobsen, Phys. Rev. Letters 95, 216401 (2005), pdf.
presentations
featured in archived article
speaker at Cornell event
Teaching
teaching activities
- ASTRO-7690: Computational Physics - Spring 2013
- MAE-8900: Research in Mechanical and Aerospace Engineering - Spring 2013
- MAE-9900: Research in Mechanical and Aerospace Engineering - Spring 2013
- PHYS-4480: Computational Physics - Spring 2013
- PHYS-7680: Computational Physics - Spring 2013
- MAE-8900: Research in Mechanical and Aerospace Engineering - Fall 2012
- MAE-9900: Research in Mechanical and Aerospace Engineering - Fall 2012
- PHYS-6572: Quantum Mechanics I - Fall 2012
- ASTRO-7690: Computational Physics - Spring 2012
- MAE-8900: Research in Mechanical and Aerospace Engineering - Spring 2012
- MAE-9900: Research in Mechanical and Aerospace Engineering - Spring 2012
- PHYS-4480: Computational Physics - Spring 2012
- PHYS-7680: Computational Physics - Spring 2012
- MAE-8900: Research in Mechanical and Aerospace Engineering - Fall 2011
- MAE-9900: Research in Mechanical and Aerospace Engineering - Fall 2011
- PHYS-7653: Statistical Physics II - Fall 2011
Background
education and training
- Ph.D., Princeton University 1981
- B.A. in Physics, Harvard University 1977
awards and distinctions listing
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- Presidential Young Investigator Award, 1985.