Publications
Submitted
- Sloppy model analysis unambiguously identifies bifurcation parameters of all commontypes of bifurcations
pdf - Bayesian, Frequentist, and Information Geometry approaches to parametric uncertainty quantification of classical empirical interatomic potentials
pdf - The supremum principle selects simple, transferable models
pdf - Information geometry for multiparameter models: New perspectives on the origin of simplicity
pdf - Utilizing nonequilibrium isotope enrichments to optimize breadth of turnover measurements in single biopsy samples from humans
- Uncertainty quantification of an ensemble of geospatial acoustic machine learning models in the
limited-data regime
- Tailoring and Verification of Dynamic Load Models in Power System Studies--the WECC Load Example
- In vivo measurement of tissue-specific bias in protein degradation pathways
- Ab Initio Study of Antisite Defects in Nb3Sn: Phase Diagram and Impact on Superconductivity
pdf - Manifold boundaries give "gray-box" approximations of complex models
- Information topology identifies emergent model classes
pdf - Performance theory: A complete metabolic theory of ecology
2022
- Application of a spectral-based wind noise reduction method to acoustical measurements
Proceedings of Meetings on Acoustics 45 045002 (2021)
DOI - Integration of Physics- and Data-Driven Power System Models in Transient Analysis after Major Disturbances
IEEE Systems Journal (accepted)
DOI
2021
- Validating two geospatial models of continental-scale environmental sound levels
JASA Express Letters 1, 122401 (2021)
DOI
Featured on the cover of the December issue of JASA-EL. - Piecemeal Reduction of Models of Large Networks
Conference on Decision and Control (accepted) - State Estimation Model Reduction through the Manifold Boundary Approximation Method
IEEE Transactions on Power Systems 37 1 272-281 (2022)
DOI - Automatic classification and reduction of wind noise in spectral data
J. Acous. Soc. of America Express Letters 1 063602 (2021)
DOI - Examining wind noise reduction effects of windscreens and microphone elevation in outdoor acoustical measurements
Proceedings of Meetings on Acoustics 42 045007 (2020)
DOI - Modeling Live Crowd Emotion Dynamics for State Estimation and Prediction
IEEE Control Systems Society Conference 402-407 (2021).
DOI - Effect of the density of states at the Fermi level on defect free energies and superconductivity: a case study of Nb3Sn
Phys. Rev. B 103 115106 (2021)
pdf
2020
- Analysis of Magnetic Vortex Dissipation in Sn-Segregated Boundaries in Nb3Sn Superconducting RF Cavities
Phys. Rev. B 103 024516 (2021)
DOI pdf - Automatic detection of instances of focused crowd involvement at recreational events
Proceedings on Meetings in Acoustics 39 040003 (2019)
DOI - Simultaneous determination of equilibrium constants, enthalpy changes and stoichometries by titration calorimetry
Gibbs Energy and Helmholtz Energy: Liquids, Solutions, and Vapours (accepted) - Symbolic Regression for Data-Driven Dynamic Model Refinement in Power Systems
IEEE Transactions on Power Systems 36 3 2390-2402 (2020)
DOI - Data-Driven Classification, Reduction, Parameter Identification and State Extension in Hybrid Power Systems
IEEE Transactions on Power Systems 36 3 2222-2233 (2020)
DOI - K-Means clustering of inputs to a geospatial model for optimizing acoustic data collection
Proceedings on Meetings in Acoustics 35 055008 (2018)
DOI - Probabilistic Extension of Flexible Hybrid State Estimation for Cyber-Physical Systems
International Journal of Electrical Power and Energy Systems 122 106179 (2020)
DOI - Vortex nucleation in superconductors within time-dependent Ginzburg-Landau theory in two and three dimensions: Role of surface defects and material inhomogeneities
Phys. Rev. B 101 144504 (2020)
pdf DOI - Flexible Hybrid State Estimation for Power Systems with Communication Irregularities
IET Generation, Transmission & Distribution 14.11 2111-2119 (2020)
DOI - Data-driven Symbolic Regression for Identification of Nonlinear Dynamics in Power Systems
IEEE Power and Energy Society General Meeting, Montreal, 2020
DOI - Interleaving Physics- and Data-Driven Models for Power Systems Transient Dynamics
Power Systems Computation Conference, Porto, Portugal, 2020
Electric Power Systems Research 189 106824
DOI
2019
- Probabilistic Network Observability of a Hybrid Power System with Communication Irregularities
North American Power Symposium (NAPS), Wichita, KS, 2019
DOI - Network Reduction of Transient Stability Models using Partial Response Matching
North American Power Symposium (NAPS), Wichita, KS, 2019
DOI - Ab Initio Calculations on the Growth and Superconducting Properties of Nb₃Sn
International Conference on RF Superconductivity (19th), Dresden, Germany, 2019
pdf - Classifying crowd behavior at collegiate basketball games using acoustic data
Proceedings on Meetings in Acoustics 35 055006 (2018)
DOI pdf - Machine learning-based ensemble model predictions of outdoor ambient sound levels
Proceedings of Meetings on Acoutstics 35 022002 (2018)
DOI pdf - Unwinding the model manifold: choosing similarity measures to remove local minima in sloppy dynamical systems
Physical Review E 100 012206
DOI pdf - Data Classification and Parameter Identification in Power Systems by Manifold Learning
IEEE Power and Energy Society Powertech, Milan (2019).
DOI - Modeling magnetic correlations in magnetite nanoparticle assemblies
using x-ray magnetic scattering data
AIP Advances 9 035033 (2019)
DOI pdf - Model Boundary Approximation Method as a unifying Framework for Balanced Truncation and Singular Perturbation Approximation
IEEE Transactions on Automatic Control 64.11 4796-4802 (2019)
DOI
See also a longer version here
2018
- Optimal Experimental Design for Machine Learning Using the Fisher Information
J. Acous. Soc. of America 144 1730 (2018)
DOI - Optimal Experimental Design for Machine Learning Using the Fisher Information
Proceedings on Meetings in Acoustics 35 055004 (2018)
DOI - Effect of extreme temperatures on soil: A calorimetric approach
Thermochimica Acta 670 128-135 (2018)
DOI pdf - Data-Driven Dynamic Equivalents for Power System Areas from Boundary Measurements
IEEE Transactions on Power Systems 34.1 360-370 (2019)
DOI - Influence of Communication Irregularities and Co-simulation on Hybrid Power System State Estimation
IEEE PES Innovative Smart Grid Technologies Conference (ISGT) Europe , Sarajevo, 2018
DOI - Geometrically Motivated Reparameterization for Identifiability Analysis in Power Systems Models
North American Power Symposium (NAPS), Fargo, ND, 2018
DOI - Simultaneous Global Identification of Dynamic and Network Parameters in Transient Stability Studies
IEEE Power and Energy Society General Meeting, Portland, 2018
DOI - Experimental design and model reduction in systems biology
Quantitative Biology 6(4) 287-306, 2018
DOI pdf - The Spectrum of Mechanism-Oriented Models and Methods for Explanations of Biological Phenomena
Processes 6, 56 (2018)
DOI pdf - Titration Calorimetry: From Concept to Application
Springer Briefs in Molecular Science
DOI pdf - Maximizing the information learned from finite data selects a simple model
Proceedings of the National Academy of Sciences 115 (8), 1760-1765 (2018)
DOI pdf
2017
- Calorimetric Methods for Measuring Stability and Reusability of Membrane Immobilized Enzymes
JFS: Food Engineering, Materials Science, and Nanotechnology 83.2 326-331 (2018)
DOI pdf - Information Geometry for Model Identification and Parameter Estimation in Renewable Energy--DFIG Plant Case
IET Generation, Transmission, and Distribution 12(6) 1294 (2018)
DOI pdf - Information Geometry Approaches to Verification of Dynamic Models in Power System
IEEE Transactions on Power Systems 33.1 440-450 (2018)
DOI pdf - SRF Theory Developments from the Center for Bright Beams
18th Int. Conf. on RF Superconductivity, Lanzhou, China (2017)
pdf - Hybrid Power System State Estimation with Irregular Sampling
IEEE Power and Energy Society General Meeting, Chicago (2017)
DOI - Information Geometry for Model Reduction of Dynamic Loads in Power Systems
IEEE Power and Energy Society Powertech, Manchester (2017).
DOI, pdf - Theoretical estimates of maximum fields in superconducting resonant radio frequency cavities: Stability theory, disorder, and laminates
Superconductor Science and Technology 30 033002 (2017)
DOI, pdf
2016
- Mechanisms of in vivo ribosome maintenance respond to nutrient signals
Molecular and Cellular Proteomics, 16.2, 243-254 (2017)
DOI pdf - The limitations of model-based experimental design and parameter estimation in sloppy systems
PLoS Computational Biology 12(12): e1005227 (2016)
DOI pdf - Ginzburg-Landau theory of the superheating field anisotropy of layered superconductors
Physical Review B 94 144504, (2016)
DOI pdf - Measurement-Directed Reduction of Dynamic Models in Power Systems
IEEE Transactions on Power Systems. 32.3, 2243-2253 (2017).
DOI pdf - Dynamic Model Estimation for Power System Areas from Boundary Measurements
IEEE Power and Energy Society General Meeting, Boston, 2016
DOI pdf - Information Geometry for Model Verification in Energy Systems
Power Systems Computation Conference, Genoa, 2016
DOI pdf - Bridging Mechanistic and Phenomenological Models of Complex Biological Systems
PLoS Computational Biology 12(5): e1004915 (2016)
DOI pdf
2015
- Enzyme-catalyzed and binding reaction kinetics determined by titration calorimetry
BBA General Subjects 1840, 957-966 (2015)
DOI pdf - Shielding superconductors with thin films as applied to rf cavities for particle accelerators
Phys. Rev. Applied 4, 044019 (2015)
DOI pdf - Perspective: Sloppiness and Emergent Theories in Physics, Biology, and Beyond
J. Chem. Phys. 143 010901 (2015)
DOI pdf - A unified view of balanced truncation and singular perturbation approximations
American Control Conference, Chicago, 2015
DOI pdf - Sloppiness and the geometry of parameter space
Uncertainty in Biology Volume 17 of the series Studies in Mechanobiology, Tissue Engineering and Biomaterials
DOI pdf - Enzyme kinetics determined by single-injection isothermal titration calorimetry
Methods 76 194-200 (2015)
DOI pdf
2014
2013
- Theoretical field limit for muli-layer superconductors
arXiv:1309.3239
See also, Response to comment on theoretical RF field limits of multilayer coating structures of superconductor resonant cavities - Parameter Space Compression Underlies Emergent Theories and Predictive Models
Science 342, 604-604 (2013)
DOI pdf
See also BYU News release, BYU Radio Interview of Transtrum by Marcus Smith (beginning at the 8:18 mark), Physicists unify the structure of scientific theories in the Cornell Chronicle (Anne Ju); Jesse Silverberg's Huffington Post blog and Kathryn McGill's vblog Soft Matters with Jim Sethna from The Physics Factor; and (Unedited) Interview of Sethna by Steven Reiner, Stony Brook School of Journalism (Mobile version). - Use of the LQ model with large fraction sizes results in underestimation of isoeffect doses
Radiotherapy and Oncology. 109 21-25 (2013)
DOI pdf
2012
- Geodesic acceleration and the small-curvature approximation for nonlinear least squares
arXiv:1207.4999 - Improvements to the Levenberg-Marquardt algorithm for nonlinear least squares minimization
arXiv:1201.5885 - Structural susceptibility and separation of time scales in the van der Pol oscillator
Physical Review E. 86 026712, (2012)
DOI pdf - Optimal Experiment Selection for Parameter Estimation in Biological Differential Equation Models
BMC Bioinformatics. 13 1, 181, (2012)
DOI pdf
2011
- Contribution to discussion on "Riemann manifold Langevin and Hamiltonian Monte Carlo Methods".
Journal of the Royal Statistical Society: B. 72 2, 123-214, (2011)
DOI pdf (Discussion on page 199.) - Comment on "Sloppy models, parameter uncertainty, and the role of experimental design"
Molecular Biosystems. 10 1039, (2011)
DOI pdf - The geometry of nonlinear least squares with applications to sloppy models and optimization.
Physical Review E. 83 036701, (2011)
DOI pdf - Superheating field of superconductors within Ginzburg Landau theory.
Physical Review B. 83 094505, (2011)
DOI pdf
2010
2009
- An Analytic iterative approach to solving the time-independent Schrodinger equation
International Journal of Quantum Chemistry. 109, 982-998, (2009)
DOI pdf
2007
- Beyond the quantum in Snyder space
Beyond the Quantum. 235-243, (2007)
2006
- A perturbative approach to Snyder space with applications
Journal of Physics A-Mathematical and General. 39, 14985-14996, (2006)
pdf
2005
- Commutation Relations for functions of operators
Journal of Mathematical Physics. 46, 063510, (2005)
DOI pdf
Transtrum Group Theses and Dissertations
Doctoral Dissertations
- Modeling Continental-Scale Outdoor Environmental Sound Levels with Limited Data
- Information Geometry and Model Reduction in Oscillatory and Networked Systems
pdf - Superconductivity at its Limit: Simulating Superconductor Dynamics Near the Superconducting Superheating Field in Eilenberger and Ginzburg-Landau Theory
pdf
Masters Theses
- Bayesian, Frequentist, and Information Geometry Approaches to Parametric Uncertainty Quantification of Classical Empirical Interatomic Potentials
pdf - Using Machine Learning to Accurately Predict Ambient Soundscapes from Limited Data Sets
- Computational Exploration of Vortex Nucleation In Type II Superconductors Using a Finite Element Method in Ginzburg-Landau Theory
pdf
Undergraduate Theses
- Sloppy Model Analysis of Buchholtz Neuron Model
pdf
- Modeling defects in Nb3Sn Superconductor Resonance Cavities with Ginzburg-Landau Theory
pdf
- Asymptotic and Bayesian Approaches to Uncertainty Quantification of Interatomic Models
pdf
- Two Reduced Models of Nerve Behavior
pdf
- Exploring Relationships Between Network Structure and Manifold Structure in Simple Path Mass Action Models
pdf
- Identifying and Removing Sloppy Parameters in Underwater Transmission Loss Models
pdf
- Computational Simulations of Temperature-Dependent Dynamics in Type II Superconductors Using a Material Specific Formulation of Ginzburg Landau Theory
pdf
- Simulations of Magnetic Vortex Nucleation at Grain Boundaries in RF Superconducting Cavities
pdf
- K-Means Clustering Analysis of Geospatial Features: Optimizing the Acquisition of Training Data
pdf
- Parameter Reduction of the Hodgkin-Huxley Model of Action Potential Propagation
pdf
- Algorithms for Inferring the Information Topology of Statistical Mechanics Models
pdf
- Model Reduction on the WNT Pathway Leads to Biological Adaptation
pdf
- Adaptation in Enzyme Networks: Searching for Minimal Mechanisms
pdf
- Improving the Efficiency of the Levenberg-Marquardt Algorithm Using Partial-Rank Jacobian Updates
(pdf)
- Computational Models of Film and Bulk Superconductors in Time Varying Magnetic Fields
(pdf)