CBC Publications sorted by author
CBC only reports publications where a significant part of the research has been funded by CBC. By this we mean that at least one of the authors of the reported publications must have his/her main affiliation with CBC, and has contributed to the publication as laid out in Simula's publication guidelines.
Publications from people with part time positions at CBC are generally not counted, unless the research is particularly relevant for a CBC project. Such exceptions from the main rule are few, and must in all cases be approved by the director of the center.
Authors in bold are part of CBC
Omar AlKhayat
Articles in International Journals

A Lumped Particle Modeling Framework for Simulating Particle Transport in Fluids
Communications in Computational Physics, vol. 8, pp. 115—142, 2010 
Particle Collisions in a Lumped Particle Model
Communications in Computational Physics, vol. 10, pp. 823—843, 2011, [DOI] 
Computational Aspects of Multiscale Simulation With the Lumped Particle Framework
Communications in Computational Physics, vol. 12, pp. 1257—1274, 2012
Refereed Proceedings

Lattice Boltzmann Method and Turbidity Flow Modeling
in MekIT'07 : Fourth National Conference in Computational Mechanics, 2007
Theses

Mesoscale Modeling of Particle Flow
Ph.D. Thesis, University of Oslo, 2010
Talks

Introduction to Particle Based Lattice Boltzmann Methods
Minisymposium Talk, 2007 
Lattice Boltzmann Method and Turbidity Flow Modeling
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
ParticleBased Methods in the Modelling of Turbidity Currents and Turbidites
Talk at the 33rd IGC Congress in Oslo, 2008 
Numerical Modeling of Turbidity Flow With the Lattice Boltzmann Method
Talk at the Computational Geoscience workshop, 2008 
A Coupled Lattice Boltzmann Model for a Turbulent SandLaden Fluid Flow
Talk at the DSFD conference in Brazil, 2008 
Numerical Python
Four day course at the University of Erlangen, 2008 
A Lumped Particle Modeling Framework for the Transport of Particles
Talk at CBC workshop on Tsunami Modelling, 2010 
A Multiscale Lumped Particle Modeling Framework for the Simulation of Turbidity Currents
Poster at the 7th EGU General Assembly, vol 12, Vienna, 2010
Martin Sandve Alnæs
Articles in International Journals

Computation of Hemodynamics in the Circle of Willis
Stroke, vol. 38, pp. 2500—2505, 2007 
Unified Framework for Finite Element Assembly
International Journal of Computational Science and Engineering, vol. 4, pp. 231—244, 2009 
On the Efficiency of Symbolic Computations Combined With Code Generation for Finite Element Methods
ACM Transactions on Mathematical Software, vol. 37, 2010 
Unified Form Language: a DomainSpecific Language for Weak Formulations of Partial Differential Equations
ACM Transactions on Mathematical Software, vol. 40, 2014 
Computational fluid dynamics evaluation of flow reversal treatment of giant basilar tip aneurysm
Interventional Neuroradiology, vol. 21, pp. 586—591, 2015, [DOI] 
Poroelastic modeling of Syringomyelia – a systematic study of the effects of pia mater, central canal, median fissure, white and gray matter on pressure wave propagation and fluid movement within the cervical spinal cord
Computer Methods in Biomechanics and Biomedical Engineering, vol. 19, pp. 686—698, 2015, [DOI] 
The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
Adjoint MultiStart Based Estimation of Cardiac Hyperelastic Material Parameters using Shear Data
Biomechanics and Modeling in Mechanobiology, pp. 1—13, 2016 
Variational data assimilation for transient blood flow simulations
Accepted for publication in International Journal for Numerical Methods in Biomedical Engineering, 2017
Chapters in Books

A Hybrid Approach to Efficient Finite Element Code Development
in Petascale Computing  Algorithms and Applications, Edited by , Chapman and Hall, 2007 
Instant: JustinTime Compilation of C/C++ in Python
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 253—268, 2012 
UFC: a Finite Element Code Generation Interface
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 279—298, 2012 
UFL: a Finite Element Form Language
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 299—334, 2012 
SyFi and SFC: Symbolic Finite Elements and Form Compilation
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 269—278, 2012
Refereed Proceedings

Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
in Fourth national conference on Computational Mechanics (MekIT'07), 2007
Conference Proceedings

Least Squares Fitting of a Cardiac Hyperelasticity Model Using an Automatically Derived Adjoint Equation
in Proceedings of NSCM27: the 27th Nordic Seminar on Computational Mechanics, 2014
Manuals

UFC Specification and User Manual 1.0
2007 
UFL Specification and User Manual
2009
Theses

A Compiler Framework for Automatic Linearization and Efficient Discretization of Nonlinear Partial Differential Equations
Ph.D. Thesis, University of Oslo, 2009
Talks

Computing the Mechanics of the Heart
Talk at CBC, Seminar on Electrophysiology Modeling, 2007 
Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
A Finite Element Model of Cardiac Electrophysiology and Mechanics
VII International conference on computational plasticity, 2007 
Two Steps Towards Automating Efficient Solution of Inverse Problems
Invited Talk at the FEniCS 08 Workshop, March 57,Baton Rouge, Louisiana, 2008 
SFC  the SyFi Form Compiler
Talk at the FEniCS 08 Workshop, March 57,Baton Rouge, Louisiana, 2008 
The Unified Form Language
Presentation at the FEniCS'09 Workshop, 2009 
The Unified Form Language
Internal presentation at CBC, 2009 
The Finite Element Library FEniCS and Simulation of Blood Flow in Cerebral Aneurysms
Talk at CSB Seminar, University of Stuttgart, 2011 
The Unified Form Language  a Domain Specific Language for Finite Element Methods
European Numerical Mathematics and Advanced Applications (ENUMATH), 2011 
Efficient Preconditioning of Optimality Systems
EMG 2012, 2012 
News in C++11
CBC Seminar series, 2012 
Numerical Comparison of Preconditioned Oneshot and Steepest Descent on Linear Elliptic Optimal Control Problems
OCIP 2012, 2012 
Efficient Compilation of Complex Tensor Algebra Expressions
FEniCS Workshop 2012, Simula Research Laboratory, 2012 
Automation of PDE Constrained Optimization  Algorithmic Differentiation As Abstract Building Blocks in High Level Algorithms
ECCOMAS 2012, Wien, 2012 
A Domain Specific Language and Symbolic Library for FEM Formulations of PDEs  the Unified Form Language
FEniCS@Imperial Day, Imperial College London, 2012 
Status of Effective Translation of Complicated Forms in FEniCS  the UFLACS Project
Jesus College, Cambrigde, 2013 
Towards NavierStokes Data Assimilation for Hemodynamics Using Automated Adjoint Methods
V International Symposium on Modelling of Physiological Flows (MPF2013), 2013 
Computational Investigation of Parent Artery Flow Reversal for Basilar Top Aneurysm
5th Asia Pacific Congress on Computational Mechanics & 4th International Symposium on Computational Mechanics, 2013 
Data Assimilation With NavierStokes Splitting Schemes and DolfinAdjoint
CBC and CCI Workshop on Advancing Numerical Technologies in the Cardiac Domain, May 15, 2013 
Status of Effective Translation of Complicated Forms in FEniCS
CBC seminar series, 2013 
The Unified Form Language – Features, implementation and future
PRISM Workshop, Imperial College London, 2014 
High level abstractions for finite element methods – The Unified Form Language and the FEniCS project
CBC/Uppsala workshop, Simula Research Laboratory, 2014 
Towards a Unified Framework for Automated a Posteriori Error Estimation and Adaptivity in SpaceTime
SIAM CSE, Salt Lake City, USA, 2015 
Identifying the Parameters of the Heart: Variational Data Assimilation in Cardiac Mechanics Using DolfinAdjoint
FEniCS '15, Imperial College London, UK, 2015 
Variational data assimilation for blood flow simulations
MS at SIAM UQ, Zurich, 2016 
Diffing and Merging Jupyter Notebooks with nbdime
SciPy 2016, 2016 
nbdime: diffing and merging notebooks
JupyterDay Orsay, 2016 
nbdime: Notebook Diffing and Merging
EuroSciPy 2016, Erlangen, Germany, 2016 
The Unified Form Language and Key Points on its Translation
SIAM CSE, Atlanta, USA, 2017 
3D visualization in Jupyter Notebooks
Luxembourg, 2017 
Notebooks in Version Control  diffing and merging with nbdime
Computational Mathematics with Jupyter workshop, Edinburgh, Scotland, 2017
Posters

FEniCS: Sustainable Software Development Practices
2017
Øyvind Andreassen
Articles in International Journals

Tracking Airborne Legionella and Legionella Pneumophila at a Biological Treatment Plant
Enviromental Science & Technology, vol. 42, pp. 7360—7367, 2008, [DOI] 
Variational Multiscale Turbulence Modelling in a High Order Spectral Element Method
Journal of Computational Physics, vol. 228, pp. 7333—7356, 2009, [DOI] 
Dispersion of LegionellaContaining Aerosols From a Biological Treatment Plant
Frontiers in Bioscience, vol. E3, pp. 1300—1309, 2011
Refereed Proceedings

Tracking Pathogenic Biological Agents in Air  a Case Study of the Outbreak of Legionellosis in Norway
in 7th Symposium on chemical, biological, nuclear and radiological threats, 2009 
Modeling the Dispersion and Transport of Aerosols Emitted From Industrial Facility During 2005 and 2008 Outbreaks of Legionnaire's Disease in Norway
in Sixth national conference on Computational Mechanics (MekIT'11), 2011
Hermenegild Arevalo
Articles in International Journals

Susceptibility to Reentry in the Infarcted Heart Depends on the Active Fibroblast Density
Biophysical Journal, vol. 110, pp. 1307—15, 2011 
Arrhythmia risk stratification of patients after myocardial infarction using personalized heart models
Nature Communications, vol. 7, 2016, [DOI] 
Optogenetic defibrillation terminates ventricular arrhythmia in mouse hearts and human simulations
The Journal of Clnical Investigation, vol. 126, 2016, [DOI]
Refereed Proceedings

From MR image to patientspecific simulation and populationbased analysis:Tutorial for an openly available imageprocessing pipeline
in MICCAI Workshop on Statistical Atlases and Cardiac Models of the Heart, 2016 
A multiple kernel learning framework to investigate the relationship between ventricular fibrillation and first myocardial infarction
in Functional Imaging and Modelling of the Heart, 2017
Posters

Effects of FibroblastMyocyte Coupling in the Infarcted Rabbit Heart
Heart Rhythm, 2009 
A datadriven framework uncovers arrhythmogenic mechanisms in a 'functionally calibrated' population of models
2017
Robert Artebrant
Articles in International Journals

Third Order Accurate NonPolynomial Reconstruction on Rectangular and Triangular Meshes
Journal of Scientific Computing, vol. 30, pp. 193—221, 2007 
Increasing the Accuracy in Locally DivergencePreserving Finite Volume Schemes for MHD
Journal of Computational Physics, vol. 227, pp. 3405—3427, 2008 
An Unconditionally Stable Second Order Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
International Journal of Numerical Analysis and Modeling, vol. 6, pp. 627—641, 2009 
A Second Order Algorithm for Solving Dynamic Cell Membrane Equations
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 2546—2548, 2009 
Bifurcating Solutions to the Monodomain Model Equipped With FitzHughNagumo Kinetics
Journal of Applied Mathematics, vol. 2009, 2009, [DOI] 
A Method for Analyzing the Stability of the Resting State for a Model of Pacemaker Cells Surrounded by Stable Cells
Mathematical Biosciences and Engineering, vol. 7, pp. 505—526, 2010 
Existence of Excitation Waves for a Collection of Cardiomyocytes Electrically Coupled to Fibroblasts
Mathematical Biosciences, vol. 230, pp. 79—86, 2011, [DOI] 
Computing the Stability of SteadyState Solutions of Mathematical Models of the Electrical Activity in the Heart
Mathematical Biosciences and Engineering, vol. 41, pp. 611—618, 2011, [DOI] 
Stability of Two TimeIntegrators for the AlievPanfilov System
International Journal of Numerical Analysis and Modeling, vol. 8, pp. 427—442, 2011
Refereed Proceedings

Locally DivergencePreserving Schemes of Higher Order
in PAMM, Proceedings in Applied Mathematics and Mechanics, 2007
Scott Baden
Articles in International Journals

Accelerating a 3D FiniteDifference Earthquake Simulation With a CtoCUDA Translator
Computing in Science & Engineering, vol. 14, pp. 48—59, 2012, [DOI] 
Modeling and Predicting Performance of High Performance Computing Applications on Hardware Accelerators
International Journal of High Performance Computing Applications, vol. 27, pp. 89—108, 2013, [DOI] 
Scalable heterogeneous CPUGPU computations for unstructured tetrahedral meshes
IEEE Micro, vol. 35, pp. 6—15, 2015, [DOI] 
Panda: A Compiler Framework for Concurrent CPU+GPU Execution of 3D Stencil Computations on GPUaccelerated Supercomputers
International Journal of Parallel Programming, 2016, [DOI]
Refereed Proceedings

SourcetoSource Optimization of CUDA C for GPU Accelerated Cardiac Cell Modeling
in Proceedings of EuroPar 2010, 2010 
Mint: Realizing CUDA Performance in 3D Stencil Methods With Annotated C
in Proceedings of the 25th International Conference on Supercomputing (ICS'11), 2011 
AutoOptimization of a Feature Selection Algorithm
in Proceedings of the 4th Workshop on Emerging Applications and Manycore Architecture, 2011 
Modeling and Predicting Performance of High Performance Computing Applications on Hardware Accelerators
in Proceedings of IEEE 26th International Parallel and Distributed Processing Symposium Workshops & PhD Forum, 2012 
Effective MultiGPU Communication Using Multiple CUDA Streams and Threads
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014 
CPU+GPU Programming of Stencil Computations for ResourceEfficient Use of GPU Clusters
in IEEE 18th International Conference on Computational Science and Engineering, 2015
Conference Proceedings

GPU Accelerated Solvers for ODEs Describing Cardiac Membrane Equations
in Proceeding of the GPU technology Conference, 2009 
GPU Accelerated Electrophysiology Simulations
in Proceedings of the 2009 ACM/IEEE Conference on supercomputing (SC 2009), 2009
Talks

Overcoming Obstacles With Graph Based Programming Models
Talk at CBC Workshop on Biomedical Computing, Simula, 2007 
A Data Centric View of Scientific Computing
Talk at CBC Workshop on Biomedical Computing, 2007 
A Sustainable Software Ecosystem
Talk at CBC Workshop on HighPerformance and Parallel Computing, 2007 
Optimizations of Common Scientific Kernels on GPU
Poster presented at the Early Adopters PhD Workshop: Building the Next Generation of Application Scientists, Supercomputing Conference 2009, Portland, OR, USA, 2009 
GPU Accelerated Electrophysiology Simulations.
Talk, Poster at GPU Technology conference, San Jose, California, 2009 
GPU Accelerated Electrophysiology Simulations
Talk, poster at the 2009 ACM/IEEE Conference on Supercomputing (SC 2009), 2009 
Detailed Numerical Analyses of the AlievPanfilov Model on GPGPU
Talk at PARA2010 Conference, 2010 
Introduction to Programming a GPU With CUDA and a Case Study: Accelerating Stencil Computation With GPUs
2010 
Optimizing the AlievPanfilov Model of Cardiac Excitation on Heterogeneous Systems
Talk at Para 2010: State of the Art in Scientific and Parallel Computing in Reykjavik on June 69, 2010, 2010 
Technological Disruption: Opportunities for Change
International FEniCS'10 workshop, KTH, Stockholm, 2010 
GPUs: Supercomputers for All, Opportunities and Folklore
Talk at PDC/CSC, KTH, Stockholm, 2010 
GPUs: Supercomputers for All, Opportunities and Folklore
Talk at Section for Scientific Computing, Technical University of Denmark, 2010 
Mint: a UserFriendly CtoCUDA Code Translator
Talk given at SIAM CSE'13, February 25, 2013 
Computing at a Million Mobiles Per Second
National University of Defense Technology, Changsha, China, 2013 
Computing at a Million Laptops Per Second
21st High Performance Computing Symposia, San Diego, 2013 
Computing at a Million of Mobiles Per Second
Rutgers University, 2014 
Embedded domain specific languages: How everyone can be an expert performance programmer
Stony Brook University, Dept of Biomedical Informatics, 2014 
Engineering for High Performance through Domain Specific Translations
Royal Institute of Technology, Stockholm, Sweden, 2014 
Engineering for High Performance through Domain Specific Translations
Computer Science Department, University in Uppsala, 2014
Gabriel Balaban
Articles in International Journals

Adjoint MultiStart Based Estimation of Cardiac Hyperelastic Material Parameters using Shear Data
Biomechanics and Modeling in Mechanobiology, pp. 1—13, 2016 
High resolution data assimilation of cardiac mechanics
International journal for numerical methods in biomedical engineering, 2017, [DOI]
Refereed Proceedings

A Newton Method for FluidStructure Interaction Using Full Jacobians Based on Automatic Form Differentiation
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Personalized Cardiac Mechanical Model using a High Resolution Contraction Field
in VPH16 Translating VPH to the Clinic, 2016
Conference Proceedings

Least Squares Fitting of a Cardiac Hyperelasticity Model Using an Automatically Derived Adjoint Equation
in Proceedings of NSCM27: the 27th Nordic Seminar on Computational Mechanics, 2014 
A Computational Method for Determining Left Ventricular Diastolic Fiber Strain Relative to a Zero Pressure Geometry
in USART Workshop, 2015 
Personalization of a Cardiac Compuational Model using Clinical Measurements
in 28th Nordic Seminar on Computational Mechanics, 2015 
Optimization of a Spatially Varying Cardiac Contraction parameter using the Adjoint Method
in FEniCS'16, 2016
Theses

Adjoint Data Assimilation Methods for Cardiac Mechanics
Ph.D. Thesis, University of Oslo, 2017
Talks

Automatic Differentiation of a FluidStructure Interaction Problem
FEniCS'13 workshop, Cambridge, 2013 
Passive Cardiac Mechanics Calibration Using Reduced Order Unscented Kalman Filtering
Presentation at the UppsalaSimula Scientific Computing Seminar, 2014 
Patient Constrained Ventricular Stress Mapping
Lugano Switzerland, 2015 
Identifying the Parameters of the Heart: Variational Data Assimilation in Cardiac Mechanics Using DolfinAdjoint
FEniCS '15, Imperial College London, UK, 2015 
Optimal Elasticity and Contraction in the Cardiac Cycle
Oslo, Simula Research Laboratory, 2015 
Dyssynchronous Left Ventricular Stress Estimation
Workshop on Advanced Numerical Techniques in Biomedical Computing: Simula Research Laboratory, 2015
Posters

Patient Specific Modeling of Cardiac Mechanics using the Active Strain Formulation
Geilo Winter School, 2016
Aslak Bergersen
Refereed Proceedings

Implementation, verification and validation of large eddy simulation models in Oasis
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
The Oasis NavierStokes Solver: Theory, Accuracy, Applications, and HighPerformance Computing Capabilities.
in FEniCS 16, 2016 
The FDA Nozzle Benchmark: In Theory There Is No Difference Between Theory and Practice, but in Practice There Is.
in American Society of Mechanical Engineers Summer Biomechanics, Bioengineering and Biotransport Conference, 2016 
An Objective Framework for Digital Removal of Bifurcation Aneurysms  Incremental Improvements?
in 11th International Symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, 2016 
Inconsistency Is the Only Thing in Which Men Are Consistent: Can Subtle Flow Rate Assumptions Have Large Implications?
in 11th International Symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, 2016 
Can Manipulation of Arterial Morphology Shed Light on the Mechanobiological Stimuli Behind Aneurysm Initiation?
in 11th International Symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, 2016 
A Benchmark Standard Model of a Generic Medical Device; All Models Are Wrong, but Some Are Useful.
in 11th International Symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, 2016
Talks

Implementation, verification and validation of large eddy simulation models in Oasis
MekIT  Conference on Computational Mechanics  NTNU, Trondheim, Norway, 2015
Anna Blechingberg
Talks

The Baby Justicia Project: Biomechanical Investigations of the Shaken Baby Syndrome (SBS)
WCB2010, Seminar session, Head/Brain Injury  Models, 2010 
Computational Simulations of the Shaken Baby Syndrom  History and Challenges
AC/DC seminar series, 2010
Rolv Erlend Bredesen
Refereed Proceedings

Benchmark of a Tsunami RunUp Code
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007
Talks

Benchmark of a Tsunami RunUp Code
Talk at the MekIT'07: Fourth National Conference on Computational Mechanics, Trondheim, Norway, 2007 
Stochastic Variation of Tsunami RunUps Due to Heterogenous Slip on Reverse Faults
Poster at the 7th EGU General Assembly, Geophysical Research Abstracts (European Geoscience Union), Copernicus, 2010
Are Magnus Bruaset
Articles in International Journals

A Lumped Particle Modeling Framework for Simulating Particle Transport in Fluids
Communications in Computational Physics, vol. 8, pp. 115—142, 2010 
Particle Collisions in a Lumped Particle Model
Communications in Computational Physics, vol. 10, pp. 823—843, 2011, [DOI] 
Accuracy and Efficiency of Stencils for the Eikonal Equation in Earth Modelling
Computational Geosciences, vol. 16, pp. 933—952, 2012, [DOI]
Edited Books

Simula Research Laboratory  by Thinking Constantly About It
Springer, 2009 
Conversations About Challenges in Computing
Springer, 2013
Chapters in Books

Turning Rocks Into Knowledge  Experiences and Results From an Industrial Collaboration in Computational Geosciences
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 553—600, 2009
Refereed Proceedings

Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow and Heat Transfer in Sedimentary Basins
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
Lattice Boltzmann Method and Turbidity Flow Modeling
in MekIT'07 : Fourth National Conference in Computational Mechanics, 2007 
Teaching PhD Students Effective Communication of Scientific Research
in ICERI2009 Proceedings CD, 2009 
A Flexible Stochastic Approach to Constraining Uncertainty in Forward Stratigraphic Models
in 18th World IMACS Congress and MODSIM09 International Congress on Modelling and Simulation, 2009 
Development of a National Workshop to Teach Norwegian Ph.D. Students in Engineering and Science How to Communicate Research
in 2009 ASEE Annual Conference & Exposition, 2009 
A Parallel 3D Front Propagation Algorithm for Simulation of Geological Folding on GPUs
in EAGE 74th Conference & Exhibition, Copenhagen, 2012
Technical Reports

PhD: Simulation of Deformation and Heat Flow in Sedimentary Basins
Simula, 2007 
Extrapolation From a Very Low Number of Computer Experiments
Simula Research Laboratory, 2010 
Parallel Solvers for Static HamiltonJacobi Equations in Three Dimensions
Simula Research Laboratory, 2013
Talks

Lattice Boltzmann Method and Turbidity Flow Modeling
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
By Thinking Constantly About It  Scientific Computing in Simula
Invited talk at College of Engineering, Pennsylvania State University, 2007 
Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow, and Heat Transport in Porous Geological Formations
Talk at the Fourth National Conference on Computational Mechanics (MekIT'07), Trondheim, Norway, 2007 
ParticleBased Methods in the Modelling of Turbidity Currents and Turbidites
Talk at the 33rd IGC Congress in Oslo, 2008 
Numerical Modeling of Turbidity Flow With the Lattice Boltzmann Method
Talk at the Computational Geoscience workshop, 2008 
A Coupled Lattice Boltzmann Model for a Turbulent SandLaden Fluid Flow
Talk at the DSFD conference in Brazil, 2008 
Numerical Python
Four day course at the University of Erlangen, 2008 
Handling Uncertainty in Numerical Models of Sedimentary Deposition: a Stochastic Approach
Talk given at the 33rd International Geological Congress, 2008
Posters

Parallel Simulation of Dual Lithology Sedimentation
2009
Xing Cai
Articles in International Journals

A Unified Framework of MultiObjective Cost Functions for Partitioning Unstructured Finite Element Meshes
Applied Mathematical Modelling, vol. 31, pp. 1711—1728, 2007 
An Order Optimal Solver for the Discretized Bidomain Equations
Numerical Linear Algebra with Applications, vol. 14, pp. 83—98, 2007 
On the Possibility for Computing the Transmembrane Potential in the Heart With a One Shot Method; an Inverse Problem
Mathematical Biosciences, vol. 210, pp. 523—553, 2007 
A Note on the Efficiency of the Conjugate Gradient Method for a Class of TimeDependent Problems
Numerical Linear Algebra with Applications, vol. 14, pp. 459—467, 2007 
A View Toward the Future of Subsurface Characterization: CAT Scanning Groundwater Basins
Water Resources Research, vol. 44, 2008, [DOI] 
A Study on Modified Szabo's Wave Equation Modeling of FrequencyDependent Dissipation in Ultrasonic Medical Imaging
Physica Scripta, vol. 2009, pp. 014014, 2009, [DOI] 
A Multilevel Approach for the Satisfiability Problem
ISAST Transactions on Computers and Intelligent Systems, vol. 1, pp. 29—37, 2009 
Analysis of Tracer Tomography Using Temporal Moments of Tracer Breakthrough Curves
Advances in Water Resources, vol. 32, pp. 391—400, 2009, [DOI] 
Simplifying the Parallelization of Scientific Codes by a FunctionCentric Approach in Python
Computational Science & Discovery, vol. 3, pp. 015003, 2010, [DOI] 
Computational Modeling of the Initiation and Development of Spontaneous Intracellular Ca2+ Waves in Ventricular Myocytes
Philosophical Transactions of the Royal Society A, vol. 368, pp. 3953—3965, 2010, [DOI] 
Stability of Two TimeIntegrators for the AlievPanfilov System
International Journal of Numerical Analysis and Modeling, vol. 8, pp. 427—442, 2011 
Accelerating a 3D FiniteDifference Earthquake Simulation With a CtoCUDA Translator
Computing in Science & Engineering, vol. 14, pp. 48—59, 2012, [DOI] 
ResourceEfficient Utilization of CPU/GPUBased Heterogeneous Supercomputers for Bayesian Phylogenetic Inference
The Journal of Supercomputing, vol. 66, pp. 364—380, 2013, [DOI] 
Balancing Efficiency and Accuracy for Sediment Transport Simulations
Computational Science & Discovery, vol. 6, pp. 015011, 2013, [DOI] 
Performance Modeling of Serial and Parallel Implementations of the Fractional AdamsBashforthMoulton Method
Fractional Calculus and Applied Analysis, vol. 17, pp. 617—637, 2014 
High Efficient Sedimentary Basin Simulations on Hybrid CPUGPU Clusters
Cluster Computing, vol. 17, pp. 359—369, 2014, [DOI] 
TimeFractional Heat Equations and Negative Absolute Temperatures
Computers & Mathematics with Applications, vol. 67, pp. 164—171, 2014, [DOI] 
Parallel performance modeling of irregular applications in cellcentered finite volume methods over unstructured tetrahedral meshes
Journal of Parallel and Distributed Computing, vol. 76, pp. 120—131, 2015, [DOI] 
CommunicationHiding Programming for Clusters with MultiCoprocessor Nodes
Concurrency and Computation: Practice and Experience, vol. 27, pp. 4172–4185, 2015, [DOI] 
Enabling a Uniform OpenCL Device View for Heterogeneous Platforms
IEICE Transactions on Information and Systems, vol. E98D, pp. 812—823, 2015, [DOI] 
Towards Simulation of Subcellular Calcium Dynamics at Nanometre Resolution
International Journal of High Performance Computing Applications, vol. 29, pp. 51—63, 2015, [DOI] 
An Analytical GPU Performance Model for 3D Stencil Computations from the Angle of Data Traffic
The Journal of Supercomputing, vol. 71, pp. 2433—2453, 2015, [DOI] 
Scalable heterogeneous CPUGPU computations for unstructured tetrahedral meshes
IEEE Micro, vol. 35, pp. 6—15, 2015, [DOI] 
Solving 3D TimeFractional Diffusion Equations by HighPerformance Parallel Computing
Fractional Calculus and Applied Analysis, vol. 19, pp. 140—160, 2016, [DOI] 
Accelerating Detailed TissueScale 3D Cardiac Simulations Using Heterogeneous CPUXeon Phi Computing
International Journal of Parallel Programming, pp. 1—23, 2016, [DOI] 
Panda: A Compiler Framework for Concurrent CPU+GPU Execution of 3D Stencil Computations on GPUaccelerated Supercomputers
International Journal of Parallel Programming, 2016, [DOI]
Books

Elements of Scientific Computing
Springer, 2010
Edited Books

Quantitative Information Fusion for Hydrological Sciences
Springer, 2008
Chapters in Books

A Multilevel Greedy Algorithm for the Satisfiability Problem
in Advances in Greedy Algorithms, Edited by , INTECH Education and Publishing, pp. 39—54, 2008 
Past and Future Perspectives on Scientific Software
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 321—362, 2009 
Parallel Computing Engines for Subsurface Imaging Technologies
in Advanced Computational Infrastructures for Parallel and Distributed Adaptive Applications, Edited by , Wiley, pp. 29—43, 2010 
Parallel Computing
in Encyclopedia of Applied and Computational Mathematics, Edited by , Springer Berlin Heidelberg, pp. 1129—1132, 2015
Refereed Proceedings

Making Hybrid Tsunami Simulators in a Parallel Software Framework
in International Workshop on Applied Parallel Computing (PARA'06), 2007 
Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow and Heat Transfer in Sedimentary Basins
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
On the Efficiency of Python for HighPerformance Computing: a Case Study Involving Stencil Updates for Partial Differential Equations
in Modeling, Simulation and Optimization of Complex Processes, 2008 
Evolution of Intracellular Ca2+ Waves From About 10,000 RyR Clusters: Towards Solving a Computationally Daunting Task
in The Fifth International Conference on Functional Imaging and Modeling of the Heart, 2009 
Numerical Analysis of a DualSediment Transport Model Applied to Lake Okeechobee, Florida
in Proceedings of the 2010 Ninth International Symposium on Parallel and Distributed Computing, 2010 
Mint: Realizing CUDA Performance in 3D Stencil Methods With Annotated C
in Proceedings of the 25th International Conference on Supercomputing (ICS'11), 2011 
A New Parallel 3D Front Propagation Algorithm for Fast Simulation of Geological Folds
in The International Conference on Computational Science, ICCS 2012, 2012 
Performance of Sediment Transport Simulations on NVIDIA's Kepler Architecture
in The International Conference on Computational Science, ICCS 2013, 2013 
Automated Transformation of GPUSpecific OpenCL Kernels Targeting Performance Portability on MultiCore/ManyCore CPUs
in Proceedings of EuroPar 2014, 2014 
Utilizing Multiple Xeon Phi Coprocessors on One Compute Node
in International Conference on Algorithms and Architectures for Parallel Processing, 2014 
Effective MultiGPU Communication Using Multiple CUDA Streams and Threads
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014 
Heterogeneous CPUGPU Computing for the Finite Volume Method on 3D Unstructured Meshes
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014 
CPU+GPU Programming of Stencil Computations for ResourceEfficient Use of GPU Clusters
in IEEE 18th International Conference on Computational Science and Engineering, 2015 
Towards Detailed TissueScale 3D Simulations of Electrical Activity and Calcium Handling in the Human Cardiac Ventricle
in The 15th International Conference on Algorithms and Architectures for Parallel Processing (ICA3PP 2015), 2015 
On the Performance and Energy Efficiency of the PGAS Programming Model on Multicore Architectures
in High Performance Computing & Simulation (2016)  International Workshop on Optimization of Energy Efficient HPC & Distributed Systems, 2016 
Enabling TissueScale Cardiac Simulations Using Heterogeneous Computing on Tianhe2
in IEEE 22nd International Conference on Parallel and Distributed Systems (ICPADS), 2016 
Matlab2cpp: A MatlabtoC++ code translator
in IEEE 2016 11th System of Systems Engineering Conference (SoSE), 2016
Technical Reports

Is PGAS ready for the challenge of energy efficiency? A study with the NAS benchmark.
UiT, 2015
Talks

On a Future Software Platform for Demanding MultiScale and MultiPhysics Problems
Talk at SIAM CSE07 Conference, Costa Mesa, CA, Feb. 1923, 2007 
Simulating Tsunami Propagation on Parallel Computers Using a Hybrid Software Framework
Guest lecture given at the University of Stuttgart, March 12, 2007 
On Building Parallel Algorithms and Software for Hydraulic Tomography
Talk at SIAM GS2007 Conference, March 1922, Santa Fe, New Mexico, USA, 2007 
Building Hybrid Parallel PDE Software by Domain Decomposition and ObjectOriented Programming
Talk at the ICCM 2007 Conference, April 46, Hiroshima, Japan, 2007 
Bridging the Gap Between Computational Scientists and HPC
Article published in Meta, Number 3, 2007 
Making Parallel PDE Software by ObjectOriented Programming
Guest lecture given at Hohai University, China, May 17, 2007 
Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow, and Heat Transport in Porous Geological Formations
Talk at the Fourth National Conference on Computational Mechanics (MekIT'07), Trondheim, Norway, 2007 
Parallel Computing; Why & How?
Lecture at the 2008 Winter School on Parallel Computing, Jan. 2025, Geilo, Norway, 2008 
HighPerformance Computing on DistributedMemory Architecture
Lecture at the 2008 Winter School on Parallel Computing, Jan. 2025, Geilo, Norway, 2008 
Simulation of Tsunami Propagation
Talk at the 2nd eScience Meeting, Jan. 2122, Geilo, Norway, 2008 
Use of Advanced Computing in Tomographic Surveys
Talk at PARA 2008, May 1316, Trondheim, Norway, 2008 
ResourceEfficient Simulation Of Tsunami Wave Propagation on Parallel Computers
Invited talk at 2nd Internationsal Symposium for Integrated Predictive Simulation System for Earthequake and Tsunami Disaster, October 2122, Tokyo, Japan, 2008 
Detailed Numerical Analyses of the AlievPanfilov Model on GPGPU
Talk at PARA2010 Conference, 2010 
Optimizing the AlievPanfilov Model of Cardiac Excitation on Heterogeneous Systems
Talk at Para 2010: State of the Art in Scientific and Parallel Computing in Reykjavik on June 69, 2010, 2010 
Parallel Programming Using Python
CBC Seminar on advanced use of Python programming language, 2010 
A FunctionCentric Generic Framework for Parallelization
Talk at CLS Workshop at UiO on April 13, 2011 
Study of the Computational Efficiency for Different Usages of Pythoning
Talk at CLS Workshop at UiO on April 13, 2011 
Efficient Computations of InitialValue Problems Involving Fractional Derivatives
Talk at the seminar on wave propagation in complex media, November 23, 2011 
Parallel Simulation of Particle Transport Using OpenMP
Guest lecture at UCSD on January 31, 2011 
Programming With OpenMP and Mixed MPIOpenMP
Invited lecture at preconference workshop of NOTUR 2011, 2011 
Programming With OpenMP and Mixed MPIOpenMP
Invited lecture during USIT's Research Computing Services training week, November 1417, 2011 
Understanding the Performance of StencilBased Computations on Multicore CPU
CBC Seminar series, 2012 
Some Perspectives on HighPerformance Computing in the Geosciences
Computational Geoscience Workshop, Geilo, January 19, 2012 
Elements of Scientific Computing
3day intensive course given at National University of Defence Technology, China, October 1618, 2012 
Scientific Computing Needs Supercomputers, But Also Something Else!
Invited lecture at National University of Defence Technology, China, March 29, 2012 
Mint: a UserFriendly CtoCUDA Code Translator
Talk given at SIAM CSE'13, February 25, 2013 
Scientific Computing on AcceleratorBased Supercomputers
Guest lecture at FFI, September 20, 2013 
Adopting Heterogeneous Hardware Platforms for Scientific Computing
Guest lecture at Technical Unviersity of Denmark, December 5, 2013 
Introduction to Scientific Writing
Intensive course given at National University of Defence Technology, China, October 1719, 2013 
Arrhythmogenic Mechanisms and Therapeutic Targets for Catecholaminergic Polymorphic Ventricular Tachycardia: A Simulation Study in a Human Ventricular Myocyte
Simula Research Laboratory, 2014 
Mathematical Modeling of Ca Handling and Computational Studies of Carelated Arrhythmogenesis in Heart
National University of Defense Technology, China, 2014 
Heterogeneous Manycore Simulations in Cardiac Electrophysiology
Tenth International Workshop on Programmability and Architectures for Heterogeneous Multicores (MULTIPROG2017), Stockholm, Sweden, 2017
Posters

Parallel Simulation of Dual Lithology Sedimentation
2009 
Spontaneous Ca2+ Release and Ca2+ Waves Underlie Early and Delayed Afterdepolarizations, and Triggered Activity, in Ryanodine Receptor Mutations Associated With Catecholaminergic Polymorphic Ventricular Tachycardia
2014 
Cellular Arrhythmogenesis in CPVT in a Computational Model of Cardiac Ventricular Myocyte
2014 
Spontaneous Ca2+ Release and Ca2+ Waves Underlie Early and Delayed Afterdepolarizations, and Triggered Activity in Ryanodine Receptor Mutation associated with Catecholaminergic Polymorphic Ventricular Tachycardia
2014 
Cellular Arrhythmogenesis in CPVT in a computational model of cardiac ventricular myocyte
2014
Public Outreach

Simulating Basin Evolution on GPUEnhanced Hybrid Supercomputers
2012 
SupercomputingEnabled Study of Subcellular Calcium Dynamics
2014
Stuart Clark
Articles in International Journals

Convection Models in the Kamchatka Region Using Imposed Plate Motion and Thermal Histories
Journal of Geodynamics, vol. 46, pp. 1—9, 2008 
Episodicity in BackArc Tectonic Regimes
Physics of the Earth and Planetary Interiors, vol. 171, pp. 265—279, 2008 
Benchmarking FEniCS for Mantle Convection Simulations
Computers & Geosciences, vol. 50, pp. 95—105, 2013 
Balancing Efficiency and Accuracy for Sediment Transport Simulations
Computational Science & Discovery, vol. 6, pp. 015011, 2013, [DOI]
Chapters in Books

Dynamic Simulations of Convection in the Earth's Mantle
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 587—602, 2012
Refereed Proceedings

Uncertainty Analysis of the Mechanics of the Heart
in Proceedings of the Twenty Second Nordic Seminar on Computational Mechanics, 2009 
A Flexible Stochastic Approach to Constraining Uncertainty in Forward Stratigraphic Models
in 18th World IMACS Congress and MODSIM09 International Congress on Modelling and Simulation, 2009 
Numerical Analysis of a DualSediment Transport Model Applied to Lake Okeechobee, Florida
in Proceedings of the 2010 Ninth International Symposium on Parallel and Distributed Computing, 2010 
FEniCS Framework in Geoscientific Applications
in The 19th International Congress on Modelling and Simulation (MODSIM2011), 2011 
RoseDist: Generalized Tool for Simulating With NonStandard Probability Distributions
in MODSIM2013, 20th International Congress on Modelling and Simulation, 2013
Talks

Lithospheric Modelling: Research Directions at Simula
Talk at the GeoMath08, workshop, Santa Fe, New Mexico, 2008 
Geodynamics: the Physics and Mathematics of Terrestrial and ExtraTerrestrial Processes
Talk at the Center for Biomedical Computing Annual Meeting, 2008 
Simulating and Visualising the Earth As a Dynamic System
Talk given to Valler High School Teachers, 2008 
Handling Uncertainty in Numerical Models of Sedimentary Deposition: a Stochastic Approach
Talk given at the 33rd International Geological Congress, 2008 
Slabs in the Mantle  Dynamic Topography and Mantle Rheology in the SouthWestern Pacific
Talk given at the 33rd International Geological Congress, 2008 
Microplate Modeling of the Afar Depression Using 4D Lithospheric Model (4DLM) and Splates: Implications for Development of Plate Boundaries
Talk given at Geological Society of America, 2010 
An Inverse Approach to Stratigraphic Modelling
34th International Geological Congress, Brisbane, Australia, 2012 
Flexible Finite Element Methods for Geodynamics
SIAM conference on Mathematical and Computational Issues in the Geosciences, June 1720, 2013 
Fast and accurate Solutions of the Eikonal and Transport Equations
Amsterdam, 2014
Posters

Parallel Simulation of Dual Lithology Sedimentation
2009 
The Afar Region: Numerical Modeling Using Geological Data
2012 
Testing the Linkage Between the Galapagos Hotspot and the Caribbean Large Igneous Province (CLIP) Based on a Globally Consistent Plate Kinematic Model
EGU General Assembly 2013, 2013
Sigrid Kaarstad Dahl
Articles in International Journals

Impact of Pulmonary Venous Locations on the IntraAtrial Flow and Mitral Plane Velocity Profile
Cardiovascular Engineering and Technology, vol. 3, pp. 2069—281, 2012 
FSISimulation of Asymmetric Mitral Valve Dynamics During Diastolic Filling
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 121—130, 2012 
Application of a Strong FSI Coupling Scheme for the Numerical Simulation of Bileaflet Mechanical Heart Valve Dynamics: Study of Wall Shear Stress on the Leaflets
Progress in Computational Fluid Dynamics, vol. 12, pp. 68—80, 2012 
A Fast Strong Coupling Algorithm for the Partitioned FluidStructure Interaction Simulation of BMHVs
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 1281—1312, 2013
Refereed Proceedings

A FirstApproach Towards PatientSpecific 2D FSISimulation of Mitral Valve Dynamics During Diastolic Filling
in MekIT07, Fourth national conference on Computational Mechanics, 2007 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
in 8th world Congress on Computational Mechanics/5th European Congress on Computational Methods in Applied sciences and Engineering, Venice, Italy, 2008 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
A Strong Coupling FSI Scheme for Simulating BMHV Dynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011
Theses

Numerical Simulations of Blood Flow in the Left Side of the Heart
Ph.D. Thesis, Norwegian University of Science and Technology, 2012
Talks

A FirstApproach Towards PatientSpecific 2D FSISimulation of Mitral Valve Dynamics During Diastolic Filling
Talk at CBC seminar on Biomechanics, Trondheim, November 15th, 2007 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
Presented at 8th.World Congress on Computational Mechanics (WCCM8)/5th European Congress on Computational Methods in Applied Sciences and Engineeering (ECCOMAS 2008), Venice, Italy, 2008 
FluidStructure Interaction Simulation of Mitral Valve Dynamics in a SubjectSpecific Geometry During Diastolic Filling
Invited talk at the MILab seminar; Cardiac imaging and LV mechanics, Trondheim, Norway, November 10th, 2009 
Fluid Structure Interaction With an User Defined Subroutine
Invited talk at Fluent Users Group at SINTEF / NTNU, June 3rd, 2009 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
Talk at MekIT'09, Trondheim, May 27th, 2009 
Mitralklaffens Form I Systolen
Presented at Rikshospitalet University Hospital, Oslo, Norway, March, 2010 
Effect of Mitral Valve Shape on Flow Dynamics During Left Ventricular Contraction
World Congress in Biomechanics, Singapore, 2010
Jørgen Schartum Dokken
Conference Proceedings

Shape Optimization with Multiple Meshes
in FEniCS Conference 2017, 2017
Talks

Optimization Problems on Dynamical Domains with NonMatching Meshes
29th Nordic Seminar on Computational mechanics, 2016 
Automatic Adjoints of Multimesh Finite Element Discretisations
Atlanta, USA, 2017 
Shape Optimization with Multiple Meshes
Luxenbourg, 2017 
Shape Optimization with Multiple Meshes
University of Luxembourg, 2017 
Optimization Problems in Dynamical Domains with Unfitted Meshes
XDMS 2017, Umeå, 2017
Ida Nordehaug Drøsdal
Articles in International Journals

Effect of the Central Canal in the Spinal Cord on Fluid Movement Within the Cord
The Neuroradiology Journal, vol. 26, pp. 585—590, 2013
Refereed Proceedings

Porous and Viscous Flow Modeling on the Study of Cyst Development in the Human Spinal Cord
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011
Talks

Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011
Vinzenz Gregor Eck
Articles in International Journals

Stochastic sensitivity analysis for timing and amplitude of pressure waves in the arterial system
International Journal for Numerical Methods in Biomedical Engineering, vol. 31, 2015, [DOI] 
A guide to uncertainty quantification and sensitivity analysis for cardiovascular applications
International Journal for Numerical Methods in Biomedical Engineering, vol. 32, 2016, [DOI] 
Effects of arterial wall models and measurement uncertainties on cardiovascular model predictions
Journal of Biomechanics, 2017, [DOI] 
Multivariate Polynomial Chaos Expansions with Dependent Variables
Accepted for publication in SIAM Journal on Scientific Computing, 2017
Refereed Proceedings

Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
in 4th International Conference on Computational and Mathematical Biomedical Engineering (CMBE), Paris, June 29July 3, 2015 
Towards robust clinical assessment of arterial compliance
in 28th Nordic Seminar on Computational Mechanics, 2015 
Uncertainty quantification of short term baroreflex regulation of blood pressure
in CMBE15, 4th International Conference on Computational & Mathematical Biomedical Engineering, 2015 
A Validation of Coupling Carotid and Aortic Baroreflex Models to a 1D Blood Flow Model of the Systemic Arterial Tree
in ICCB 2015, VI International Conference on Computational Bioengineering, 2015 
Uncertainty quantification and sensitivity analysis for wave propagation models of the arterial systemic circulation
in ICCB 2015, VI International Conference on Computational Bioengineering, Barcelona, 2015, 2015
Conference Proceedings

Stochastic arterial flow simulations
in Proceedings of the 27th Nordic Seminar on Computational Mechanics, 2014 
Effects of parametric uncertainty in blood flow simulations
in Virtual Physiological Human Conference 2014, Trondheim, 2014
Theses

Uncertainty Quantification and Sensitivity Analysis for Cardiovascular Models
Ph.D. Thesis, 2016
Talks

Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
4th International Conference on Computational and Mathematical Biomedical Engineering, France, 2015 
Towards robust clinical assessment of arterial compliance
28th Nordic Seminar on Computational Mechanics, 2015
Gaute T. Einevoll
Articles in International Journals

An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Chapters in Books

Astrocytic Ion Dynamics: Implications for Potassium Buffering and Liquid Flow
in Computational Geoscience, Springer, 2017
Ola Løseth Elvetun
Articles in International Journals

The Split Bregman Algorithm Applied to PDEConstrained Optimization Problems With Total Variation Regularization
Computational Optimization and Applications, vol. 63, pp. 1—26, 2016 
PDEconstrained optimization with local control and boundary observations: Robust preconditioners
SIAM Journal on Scientific Computing, vol. 38, pp. A3461—A3491, 2016, [DOI]
Theses

PDEconstrained optimization: Preconditioners and diffuse domain methods
Ph.D. Thesis, Department of Mathematical Sciences and Technology Faculty of Environmental Science and Technology Norwegian University of Life Sciences, 2015
Talks

PDEConstrained Optimization Problems With Box Constraints
International Conference on Preconditioning Techniques for Scientific and Industrial Applications, Oxford, 2013
Posters

PDEConstrained Optimization Problems With Box Constraints; Effective Solution and Real World Applications
2013
Øyvind Evju
Articles in International Journals

A Study of Wall Shear Stress in 12 Aneurysms With Respect to Different Viscosity Models and Flow Conditions
Journal of Biomechanics, vol. 46, pp. 2802—2808, 2013 
Robustness of common hemodynamics indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms
Accepted for publication in PLOS ONE, 2016 
Variational data assimilation for transient blood flow simulations
Accepted for publication in International Journal for Numerical Methods in Biomedical Engineering, 2017 
Robustness of common hemodynamic indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms.
PloS one, 2017 
Rupture prediction of cerebral aneurysms: a nationwide matched casecontrol study of hemodynamics at time of diagnosis.
Accepted for publication in Journal of Neurosurgery, 2017
Chapters in Books

On the Assumption of Laminar Flow in Physiological Flows: Cerebral Aneurysms As an Illustrative Example
in Modeling the Heart and the Circulatory System, Edited by , Springer International Publishing, pp. 177—195, 2015
Theses

Computational hemodynamics in cerebral aneurysms: Robustness of rupture risk indicators under different model assumptions
Ph.D. Thesis, University of Oslo, 2017
Talks

Simulating Blood Flow in Cerebral Aneurysm
Minisymposium Numerical Methods for Biomedical Problems on Enumath, 2011 
NonNewtonian Effects in Cerebral Aneurysms. a Computational Study on 12 Patient Specific Aneurysms
ICS '12, 2012 
PatientSpecific Simulations of Vasospasm in 3 Different Cases
Modelling Physiological Flows, 2013 
Variational data assimilation for blood flow simulations
MS at SIAM UQ, Zurich, 2016 
Robustness of common hemodynamics indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms
MS at WCCM16, Seoul, 2016
Posters

On NonNewtonian Effects in Cerebral Aneurysms: a Computational Study on 12 Patient Specific Aneurysms
2012
Patrick Emmet Farrell
Articles in International Journals

Modelling of Fluidsolid Interactions Using an Adaptive Mesh Fluid Model Coupled With a Combined Finitediscrete Element Model
Ocean Dynamics, vol. 62, pp. 1487—1501, 2012 
Automated Derivation of the Adjoint of HighLevel Transient Finite Element Programs
SIAM Journal on Scientific Computing, vol. 35, pp. 369—393, 2013 
A Framework for the Automation of Generalised Stability Theory
SIAM Journal on Scientific Computing, vol. 36, pp. C25–C48, 2014, [DOI] 
Assessment of Spurious Mixing in Adaptive Mesh Simulations of the TwoDimensional LockExchange
Ocean Modelling, vol. 73, pp. 30—44, 2014, [DOI] 
The Immersed Body Supermeshing Method for Modelling Reactor Physics Problems With Complex Internal Structures
Annals of Nuclear Energy, vol. 63, pp. 399—408, 2014, [DOI] 
Tidal Turbine Array Optimisation Using the Adjoint Approach
Renewable Energy, vol. 63, pp. 658—673, 2014, [DOI] 
Deflation Techniques for Finding Distinct Solutions of Nonlinear Partial Differential Equations
SIAM Journal on Scientific Computing, vol. 37, pp. A2026—A2045, 2015, [DOI] 
The Number of Distinct Eigenvalues of a Matrix After Perturbation
Society for Industrial and Applied Mathematics, 2016, [DOI] 
Linear and nonlinear solvers for variational phasefield models of brittle fracture
International Journal for Numerical Methods in Engineering, 2016, [DOI] 
Reconstructing wave profiles from inundation data
Computer Methods in Applied Mechanics and Engineering, 2017, [DOI] 
cbcbeat: an adjointenabled framework for computational cardiac electrophysiology
Journal of Open Source Software, 2017, [DOI] 
Geometric MCMC for infinitedimensional inverse problems
Journal of Computational Physics, 2017, [DOI] 
A Preconditioner for the Ohta–Kawasaki Equation
SIAM Journal on Matrix Analysis and Applications, 2017, [DOI] 
From molecular to continuum modelling of bistable liquid crystal devices
Liquid Crystals, 2017, [DOI] 
Analysis of Carrier's Problem
SIAM Journal on Applied Mathematics, 2017, [DOI] 
Computing stationary solutions of the twodimensional Gross–Pitaevskii equation with deflated continuation
Accepted for publication in Communications in Nonlinear Science and Numerical Simulation, 2017, [DOI]
Talks

Using Adjoints to Answer Scientific Questions
CBC and CCI Workshop on Advancing Numerical Technologies in the Cardiac Domain, May 15, 2013 
Deflation techniques for distinct solutions of nonlinear PDEs
17th IMA Leslie Fox Prize Competition, Glasgow, UK, 2015, 22 June, 2015 
Automated adjoint finite element simulations with dolfinadjoint
AGM of NAG Ltd (keynote scientific speaker), Witney, UK, 2015, 18 September, 2015 
Automated adjoint finite element simulations within FEniCS
NASA Langley, Langley, USA, 2015, 5 March, 2015 
Deflation techniques for distinct solutions of nonlinear PDEs
IMA Conference on Numerical Methods for Simulation, Oxford, UK, 2015 
Deflation techniques for distinct solutions of nonlinear PDEs
PETSc 20 year anniversary conference, Chicago, USA, 2015, 16 June, 2015 
Deflation techniques for distinct solutions of nonlinear PDEs
University of Marburg, 2016 
Scalable bifurcation analysis of nonlinear PDE
University of Warwick, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs
University of Lugano, 2016 
Nonlinear solvers for variational fracture mechanics
World Congress on Computational Mechanics, Seoul,, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs
Schlumberger Abingdon Technology Centre, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs,
Uppsala University, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs
Lund University, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs
Tufts University, 2016 
Deflation techniques for distinct solutions of nonlinear PDEs
University of Manchester, 2016 
Bifurcation analysis of PDEs and VIs with deflated continuation
University College of London, 2017 
Bifurcation analysis of PDEs and VIs with deflated continuation
University of Bath, 2017
Posters

Dolfinadjoint: Automatic adjoint models for FEniCS
The 8th International Congress on Industrial and Applied Mathematics, 2015 
Dolfinadjoint, automated adjoint models for FEniCS
2015
Vidar Tonaas Fauske
Talks

Diffing and Merging Jupyter Notebooks with nbdime
SciPy 2016, 2016 
nbdime: diffing and merging notebooks
JupyterDay Orsay, 2016 
nbdime: Notebook Diffing and Merging
EuroSciPy 2016, Erlangen, Germany, 2016 
3D visualization in Jupyter Notebooks
Luxembourg, 2017 
Notebooks in Version Control  diffing and merging with nbdime
Computational Mathematics with Jupyter workshop, Edinburgh, Scotland, 2017
Jonathan Feinberg
Articles in International Journals

Chaospy: An open source tool for designing methods of uncertainty quantification
Journal of Computational Science, vol. 11, pp. 46 — 57, 2015, [DOI] 
Stochastic sensitivity analysis for timing and amplitude of pressure waves in the arterial system
International Journal for Numerical Methods in Biomedical Engineering, vol. 31, 2015, [DOI] 
A guide to uncertainty quantification and sensitivity analysis for cardiovascular applications
International Journal for Numerical Methods in Biomedical Engineering, vol. 32, 2016, [DOI] 
Multivariate Polynomial Chaos Expansions with Dependent Variables
Accepted for publication in SIAM Journal on Scientific Computing, 2017
Refereed Proceedings

Uncertainty Quantification of Diffusion in Layered Media by a New Method Based on Polynomial Chaos Expansion
in Seventh National Conference on Computational Mechanics MekIT'13, 2013 
RoseDist: Generalized Tool for Simulating With NonStandard Probability Distributions
in MODSIM2013, 20th International Congress on Modelling and Simulation, 2013 
Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
in 4th International Conference on Computational and Mathematical Biomedical Engineering (CMBE), Paris, June 29July 3, 2015 
Towards robust clinical assessment of arterial compliance
in 28th Nordic Seminar on Computational Mechanics, 2015 
Uncertainty quantification and sensitivity analysis for wave propagation models of the arterial systemic circulation
in ICCB 2015, VI International Conference on Computational Bioengineering, Barcelona, 2015, 2015 
Matlab2cpp: A MatlabtoC++ code translator
in IEEE 2016 11th System of Systems Engineering Conference (SoSE), 2016
Conference Proceedings

Stochastic arterial flow simulations
in Proceedings of the 27th Nordic Seminar on Computational Mechanics, 2014 
Effects of parametric uncertainty in blood flow simulations
in Virtual Physiological Human Conference 2014, Trondheim, 2014
Theses

Some Improvements and Applications of Nonintrusive Polynomial Chaos Expansions
Ph.D. Thesis, UiO, 2015
Talks

Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
4th International Conference on Computational and Mathematical Biomedical Engineering, France, 2015 
Polynomial Chaos Expansions part 1: Method introduction
2015 eVITA Winter School  Uncertainty Quantification for Physical Phenomena, Geilo, Norway, January 1823, 2015 
Polynomial Chaos Expansions part 2: Practical implementation
2015 eVITA Winter School  Uncertainty Quantification for Physical Phenomena, Geilo, Norway, January 1823, 2015 
Polynomial Chaos Expansions part 3: Some advanced topics
2015 eVITA Winter School  Uncertainty Quantification for Physical Phenomena, Geilo, Norway, January 1823, 2015 
Towards robust clinical assessment of arterial compliance
28th Nordic Seminar on Computational Mechanics, 2015
Henrik Finsberg
Articles in International Journals

High resolution data assimilation of cardiac mechanics
International journal for numerical methods in biomedical engineering, 2017, [DOI]
Refereed Proceedings

Personalized Cardiac Mechanical Model using a High Resolution Contraction Field
in VPH16 Translating VPH to the Clinic, 2016
Conference Proceedings

Personalization of a Cardiac Compuational Model using Clinical Measurements
in 28th Nordic Seminar on Computational Mechanics, 2015 
Optimization of a Spatially Varying Cardiac Contraction parameter using the Adjoint Method
in FEniCS'16, 2016
Talks

Patient Constrained Ventricular Stress Mapping
Lugano Switzerland, 2015
Posters

Patient Specific Modeling of Cardiac Mechanics using the Active Strain Formulation
Geilo Winter School, 2016 
Sensitivity Analysis of Cardiac Growth Models
2017 
Mechanical Analysis of Pulmonary Hypertension via Adjoint based Data Assimilation of a Finite Element Model
2017
Hannibal E. Fossum
Articles in International Journals

Dispersion of LegionellaContaining Aerosols From a Biological Treatment Plant
Frontiers in Bioscience, vol. E3, pp. 1300—1309, 2011
Refereed Proceedings

Modeling the Dispersion and Transport of Aerosols Emitted From Industrial Facility During 2005 and 2008 Outbreaks of Legionnaire's Disease in Norway
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
Flow Patterns and Aerosol Dispersion Inside an Aerosol Test Chamber
in Sixth national conference on Computational Mechanics (MekIT'11), 2011
Simon W. Funke
Articles in International Journals

A wetting and drying algorithm with a combined pressure/freesurface formulation for nonhydrostatic models
Advances in Water Resources, vol. 34, pp. 1483 — 1495, 2011, [DOI] 
Automated Derivation of the Adjoint of HighLevel Transient Finite Element Programs
SIAM Journal on Scientific Computing, vol. 35, pp. 369—393, 2013 
A Framework for the Automation of Generalised Stability Theory
SIAM Journal on Scientific Computing, vol. 36, pp. C25–C48, 2014, [DOI] 
Tidal Turbine Array Optimisation Using the Adjoint Approach
Renewable Energy, vol. 63, pp. 658—673, 2014, [DOI] 
Designing Large Arrays of Tidal Turbines: a Synthesis and Review
Renewable & Sustainable Energy Reviews, vol. 41, pp. 454—472, 2015, [DOI] 
Deflation Techniques for Finding Distinct Solutions of Nonlinear Partial Differential Equations
SIAM Journal on Scientific Computing, vol. 37, pp. A2026—A2045, 2015, [DOI] 
Determining Tidal Turbine Farm Efficiency in the Western Passage using the Disc Actuator Theory
Ocean Dynamics, vol. 66, pp. 41—57, 2015, [DOI] 
Design optimisation and resource assessment for tidalstream renewable energy farms using a new continuous turbine approach
Renewable Energy, vol. 99, pp. 1046—1061, 2016, [DOI] 
Integration of cost modelling within the micrositing design optimisation of tidal turbine arrays
Renewable Energy, vol. 85, pp. 215—227, 2016, [DOI] 
A surrogatemodel assisted approach for optimising the size of tidal turbine arrays
International Journal of Marine Energy, 2016 
The trade off between tidalturbine array yield and environmental impact: a multiobjective optimisation problem
Renewable Energy, 2016 
Hybrid Genetic Deflated Newton Method for Global Optimisation
Journal of Computational and Applied Mathematics, 2017, [DOI] 
Reconstructing wave profiles from inundation data
Computer Methods in Applied Mechanics and Engineering, 2017, [DOI] 
Application of the adjoint approach to optimise the initial conditions of a turbidity current (AdjointTurbidity 1.0)
Geoscientic Model Development, pp. 1051—1068, 2017, [DOI] 
Variational data assimilation for transient blood flow simulations
Accepted for publication in International Journal for Numerical Methods in Biomedical Engineering, 2017 
cbcbeat: an adjointenabled framework for computational cardiac electrophysiology
Journal of Open Source Software, 2017, [DOI]
Books

Mesh dependence in PDEconstrained optimisation
Springer Research Brief, 2017
Refereed Proceedings

Tidal stream resource assessment through optimisation of array design with quantification of uncertainty
in European Wave and Tidal Energy Conference, 2015 
A continuous approach for the optimisation of tidal turbine farms
in European Wave and Tidal Energy Conference 2015, 2015 
Standard methodology for tidal array project optimisation: An idealized study of the Minas Passage
in European Wave and Tidal Energy Conference 2015, 2015 
On the validity of tidal turbine array configurations obtained from steadystate adjoint optimisation
in European Congress on Computational Methods in Applied Sciences and Engineering (ECCOMAS 2016), 2016
Conference Proceedings

A Hierarchy of Approaches for the Optimal Design of Tidal Turbine Arrays
in ICOE 2014 (5th International Conference on Ocean Energy), 2014 
Shape Optimization with Multiple Meshes
in FEniCS Conference 2017, 2017
Talks

PDEConstrained Optimisation in Hilbert Spaces
FEniCS'14 workshop, Paris, 2014 
Lecture on PDEconstrained optimization with FEniCS
Zhjiang University, Hangzhou, China, 2014 
Data assimilation in timedependent blood flow simulations
Ankara, 2015 
Data assimilation in timedependent blood flow simulations
London, UK, 2015 
Optimizing tidal turbine farms with highlevel tools
Texas A&M, USA, 2015 
Assimilating 4DMRI blood flow measurements using PDEconstrained optimisation
Oslo, 2015 
Designing Tidal Turbine Arrays With PDEconstrained Optimisation
Pilsen, Czech Republic, 2016 
Variational data assimilation for blood flow simulations
MS at SIAM UQ, Zurich, 2016 
Introduction to FEniCS and dolfinadjoint
Symposium on the Application of Finite Elements in Physics and Engineering, University of South Africa, Johannesburg, South Africa, 2016 
Designing Tidal Turbine Arrays With PDEconstrained Optimisation
ESCO 2016, Plzeň, Czech Republic, 2016 
Automatic Adjoints of Multimesh Finite Element Discretisations
Atlanta, USA, 2017 
Machine learning with expert systems
Simula Research Laboratory, 2017 
Shape Optimization with Multiple Meshes
Luxenbourg, 2017 
Optimization Problems in Dynamical Domains with Unfitted Meshes
XDMS 2017, Umeå, 2017 
The Power of Python in Science and Education
Tromsø, 2017
Posters

Benchmarking Tidal Array Optimization: a Balance Between Impacts & Economics of the Bay of Fundy
EWTEC 2015, 2014 
Resource Assessment of Tidal Sites Through Array Optimisation of the Number of Turbines and the MicroSiting Design
2014 
Dolfinadjoint: Automatic adjoint models for FEniCS
The 8th International Congress on Industrial and Applied Mathematics, 2015 
Dolfinadjoint, automated adjoint models for FEniCS
2015 
A new algorithmic differentiation tool (not only) for FEniCS
2017 
Sensitivity Analysis of Cardiac Growth Models
2017
Namit Gaur
Articles in International Journals

Accelerating Detailed TissueScale 3D Cardiac Simulations Using Heterogeneous CPUXeon Phi Computing
International Journal of Parallel Programming, pp. 1—23, 2016, [DOI]
Refereed Proceedings

Towards Detailed TissueScale 3D Simulations of Electrical Activity and Calcium Handling in the Human Cardiac Ventricle
in The 15th International Conference on Algorithms and Architectures for Parallel Processing (ICA3PP 2015), 2015 
Enabling TissueScale Cardiac Simulations Using Heterogeneous Computing on Tianhe2
in IEEE 22nd International Conference on Parallel and Distributed Systems (ICPADS), 2016
Talks

Arrhythmogenic Mechanisms and Therapeutic Targets for Catecholaminergic Polymorphic Ventricular Tachycardia: A Simulation Study in a Human Ventricular Myocyte
Simula Research Laboratory, 2014 
Mathematical Modeling of Ca Handling and Computational Studies of Carelated Arrhythmogenesis in Heart
National University of Defense Technology, China, 2014
Posters

Spontaneous Ca2+ Release and Ca2+ Waves Underlie Early and Delayed Afterdepolarizations, and Triggered Activity, in Ryanodine Receptor Mutations Associated With Catecholaminergic Polymorphic Ventricular Tachycardia
2014 
Cellular Arrhythmogenesis in CPVT in a Computational Model of Cardiac Ventricular Myocyte
2014 
Spontaneous Ca2+ Release and Ca2+ Waves Underlie Early and Delayed Afterdepolarizations, and Triggered Activity in Ryanodine Receptor Mutation associated with Catecholaminergic Polymorphic Ventricular Tachycardia
2014 
Cellular Arrhythmogenesis in CPVT in a computational model of cardiac ventricular myocyte
2014
Tor Gillberg
Articles in International Journals

Accuracy and Efficiency of Stencils for the Eikonal Equation in Earth Modelling
Computational Geosciences, vol. 16, pp. 933—952, 2012, [DOI] 
Fast Computation of Eikonal and Transport Equations on GPU Computer Architectures
Geophysics, vol. 80, 2015
Refereed Proceedings

A SemiOrdered Fast Iterative Method (SOFI) for Monotone Front Propagation in Simulations of Geological Folding
in MODSIM2011, 19th International Congress on Modelling and Simulation, 2011 
A Parallel 3D Front Propagation Algorithm for Simulation of Geological Folding on GPUs
in EAGE 74th Conference & Exhibition, Copenhagen, 2012 
A New Parallel 3D Front Propagation Algorithm for Fast Simulation of Geological Folds
in The International Conference on Computational Science, ICCS 2012, 2012 
Effective MultiGPU Communication Using Multiple CUDA Streams and Threads
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014
Technical Reports

Parallel Solvers for Static HamiltonJacobi Equations in Three Dimensions
Simula Research Laboratory, 2013
Theses

Fast and Accurate Front Propagation for Simulation of Geological Folds
Ph.D. Thesis, Faculty of Mathematics and Natural Sciences, University of Oslo, 2013
Talks

A SemiOrdered Fast Iterative Method (SOFI) for Monotone Front Propagation in Simulations of Geological Folding
The 19th International Congress on Modelling and Simulation (MODSIM2011), 2011 
A Parallel 3D Front Propagation Algorithm for Simulation of Geological Folding on GPUs
EAGE 74th Conference & Exhibition, 2012 
Massively Parallel Front Tracking
Computational Geoscience Workshop, 1820 January 2012 in Geilo, 2012 
Developing and Implementing Parallel Algorithms for Fold Simulations in 3D
Presented during a workshop at Simula: Using the GPU for Scientific Computing: coding concepts and a look at applications in structural geology http://simula.no/intranet/news/usingthegpuforscie\ ntificcomputingcodingconceptsandalookatappl, 2013 
Fast and accurate Solutions of the Eikonal and Transport Equations
Amsterdam, 2014
Sjur Urdson Gjerald
Chapters in Books

Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Lecture Notes in Computer Science, Springer International Publishing, pp. 93–104, 2014
Refereed Proceedings

Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Statistical Atlases and Computational Models of the HeartImaging and Modelling Challenges, 2015 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythmogenic cardiomyopathy
in EHealth and Bioengineering Conference (EHB), 2015
Talks

Towards PatientSpecific Models of Strongly Coupled Cardiac ElectroMechanics
Cardiac Physiome Workshop, San Diego, 2012 
PatientSpecific Models of Cardiac ElectroMechanics
Federal University of Juiz de Fora, 2013 
Patient Specific Models of Cardiac ElectroMechanics
Seminar at Ecole des Mines, St Etienne, France, 2014 
A generic right ventricle model for simulating patientspecific pacing procedures from echocardiography data
Workshop on Models for surgical decision support at VPH2014 in Trondheim, 2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
VPH 2014, Trondheim, Norway, 2014 
Computational models of electromechanical interactions in the heart
University of Uppsala, 2015
Posters

Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Biophysical Society 58th Annual Meeting, 2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Copenhagen Meeting on Cardiac Arrhythmia, May 1922, 2014, 2014
Thor Gjesdal
Articles in International Journals

Variational Multiscale Turbulence Modelling in a High Order Spectral Element Method
Journal of Computational Physics, vol. 228, pp. 7333—7356, 2009, [DOI]
Sylfest Glimsdal
Articles in International Journals

Tsunami Generation and Propagation From the Mjølnir Asteroid Impact
Metheoritics & Planetary Science, vol. 42, pp. 1473—1493, 2007
Chapters in Books

The Mjølnir Tsunami
in The Mjølnir Impact Event and its Consequences, Edited by , Springer, pp. 257—271, 2010
D. G. E. Grigoriadis
Articles in International Journals

Lagrangian Particle Dispersion in Turbulent Flow Over a Wall Mounted Obstacle
International Journal of Heat and Fluid Flow, vol. 30, pp. 462—470, 2009, [DOI] 
Immersed Boundary Method for the MHD Flows of Liquid Metals
Journal of Computational Physics, vol. 228, pp. 903—920, 2009 
MHD Flow Past a Circular Cylinder Using the Immersed Boundary Method
Computers & Fluids, vol. 39, pp. 345—358, 2010, [DOI]
Refereed Proceedings

Lagrangian Particle Dispersion in Turbulent Flow Over a Wall Mounted Obstacle
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
Efficient Simulations of Wall Bounded Magnetohydrodynamics Flows
in 6th GRACN International Congress on Computational Mechanics, 2008 
Extension of the Immersed Boundary Method for LiquidMetal Magnetohydrodynamics
in Immersed Boundary Methods: Current status and Future Research Directions, 2009 
Turbulent Effects of Liquid Metal Flow Under Strong Fringing Magnetic Fields
in 6th International Symposium on Turbulence and Shear Flow Phenomena, 2009
Joachim Berdal Haga
Articles in International Journals

Efficient Block Preconditioners for the Coupled Equations of Pressure and Deformation in Highly Discontinuous Media
International Journal for Numerical and Analytical Methods in Geomechanics, vol. 35, pp. 1466—1482, 2011, [DOI]
Chapters in Books

Block Preconditioning of Systems of PDEs
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 643—654, 2012
Refereed Proceedings

Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow and Heat Transfer in Sedimentary Basins
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
On the Performance of an Algebraic Multigrid Preconditioner for the Pressure Equation With Highly Discontinuous Media
in MekIT'09. Fifth national conference on Computational Mechanics, 2009
Technical Reports

PhD: Simulation of Deformation and Heat Flow in Sedimentary Basins
Simula, 2007
Theses

Numerical Methods for BasinScale Poroelastic Modelling
Ph.D. Thesis, University of Oslo, 2011
Talks

Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow, and Heat Transport in Porous Geological Formations
Talk at the Fourth National Conference on Computational Mechanics (MekIT'07), Trondheim, Norway, 2007 
Parallel Computations and the Finite Element Method
Invited talk at Sintef Applied Mathematics group, 2008 
On the Perfermance of an Algebraic Multigrid Preconditioner for the Pressure Equationwith Highly Discontinuous Media
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009
Johan Elon Hake
Articles in International Journals

Stochastic Binding of Ca2+ in the Dyadic Cleft: Continuous Vs. RandomWalk Description of Diffusion.
Biophysical Journal, vol. 94, pp. 4184—4201, 2008, [DOI] 
Control of Ca2+ Release by Action Potential Configuration in Normal and Failing Murine Cardiomyocytes
Biophysical Journal, vol. 99, pp. 1377—1386, 2010 
FiniteElement Estimation of Proteinligand Association Rates With PostEncounter Effects: Applications to Calcium Binding in Troponin C and SERCA
Computational Science & Discovery, vol. 5, pp. 014015, 2012 
MultiScale Continuum Modeling of Biological Processes: From Molecular ElectroDiffusion to SubCellular Signaling Transduction
Computational Science & Discovery, vol. 5, pp. 015002, 2012 
Modeling Cardiac Calcium Sparks in a ThreeDimensional Reconstruction of a Calcium Release Unit
The Journal of Physiology, vol. 590, pp. 4403—4422, 2012 
Instabilities of the Resting State in a Mathematical Model of Calcium Handling in Cardiac Myocytes
Mathematical Biosciences, vol. 236, pp. 97—107, 2012, [DOI] 
Modeling Effects of LType Ca2+ Current and Na+Ca2+ Exchanger on Ca2+ Trigger Flux in Rabbit Myocytes With Realistic TTubule Geometries
Frontiers in Physiology, vol. 3, pp. 351, 2012 
Slow CalciumDepolarizationCalcium Waves May Initiate Fast Local Depolarization Waves in Ventricular Tissue
Progress in Biophysics and Molecular Biology, vol. 110, pp. 295—304, 2012 
UPy: a Ubiquitous Computer Graphics Python API With Biological Modeling Applications
IEEE Computer Graphics and Applications, vol. 32, pp. 50—61, 2012 
Slow Ca2+ Sparks DeSynchronize Ca2+ Release in Failing Cardiomyocytes: Evidence for Altered Configuration of Ca2+ Release Units?
Journal of Molecular and Cellular Cardiology, vol. 58, pp. 41—52, 2013 
Molecular and SubcellularScale Modeling of Nucleotide Diffusion in the Cardiac Myofilament Lattice
Biophysical Journal, vol. 105, pp. 2130, 2013, [DOI] 
Nonequilibrium reactivation of Na+ current drives early afterdepolarizations in mouse ventricle
Circulation: Arrhythmia and Electrophysiology, vol. 7, pp. 1205—1213, 2014 
Computational modeling of subcellular transport and signaling
Current Opinion in Structural Biology, vol. 25, pp. 92–97, 2014, [DOI] 
Towards Simulation of Subcellular Calcium Dynamics at Nanometre Resolution
International Journal of High Performance Computing Applications, vol. 29, pp. 51—63, 2015, [DOI] 
The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
Spacediscretization error analysis and stabilization schemes for conduction velocity in cardiac electrophysiology
International Journal for Numerical Methods in Biomedical Engineering, 2016, [DOI] 
cbcbeat: an adjointenabled framework for computational cardiac electrophysiology
Journal of Open Source Software, 2017, [DOI]
Chapters in Books

Lessons Learned in Mixed Language Programming
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 363—381, 2012 
A Coupled Stochastic and Deterministic Model of Ca2+ Dynamics in the Dyadic Cleft
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 611—627, 2012 
DOLFIN: a C++/Python Finite Element Library
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 173—225, 2012 
Calcium Signaling in Cardiomyocyte Models With Realistic Geometries (6th Edition)
in Cardiac Electrophysiology: From Cell to Bedside, Edited by , Elsevier Science, pp. 33.1—33.10, 2013 
Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Lecture Notes in Computer Science, Springer International Publishing, pp. 93–104, 2014 
Calcium Signaling in Cardiomyocyte Models With Realistic Geometries (7th Edition)
in Cardiac Electrophysiology: From Cell to Bedside, Edited by , Elsevier Science, 2016
Refereed Proceedings

Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Statistical Atlases and Computational Models of the HeartImaging and Modelling Challenges, 2015
Conference Proceedings

A MarkovState Model for the Regulation of the Sarcoplasmic Reticulum Ca2+ ATPase by Phospholamban
in Annual meeting in Biophysical society, 2014
Theses

Calcium Dynamics in Signaling Micro Domains of Cardiac Myocytes  a Modelling Study
Ph.D. Thesis, University of Oslo, 2009
Talks

Subcellular Calsium Handling
Talk at CBC, Seminar on Electrophysiology Modeling, 2007 
Stochastic Binding of Ca2+ Ions in the Dyadic Cleft Continuous Vs Random Walk Description of Diffusion
Presentation at ICIAM 07, 2007 
Stochastic Binding of Ca2+ Ions in the Dyadic Cleft Continuous Vs Random Walk Description of Diffusion
Poster presentation at 5th Annual CHFR Symposium, 2007 
Modelling the Mesoscopic Length Scale of EC Coupling: the Diadic Cleft
Invited talk at 'European Conference on Mathematical and Theoretical Biology', 2008 
Triangular Surface Mesh Improvement and Tetrahedral Mesh Generation Using GAMer and Blender
CBC Seminar series, 2012 
PatientSpecific Models of Cardiac ElectroMechanics
Federal University of Juiz de Fora, 2013 
A General ODE Translator (Gotran): Towards a Versatile Tool for General ODEs
CBC and CCI Workshop on Advancing Numerical Technologies in the Cardiac Domain, May 15, 2013 
Patient Specific Models of Cardiac ElectroMechanics
Seminar at Ecole des Mines, St Etienne, France, 2014 
Computational Models of ElectroMechanical Interactions in the Heart
Invited mini symposium presentation at the European Conference for Mathematics in Industry, Taormina, Italy., 2014
Posters

A Stochastic Model of the Ryanodine Receptor Featuring Coupled Gating and Competitive Binding of Luminal and Cytosolic Ca2+ and Mg2+
2011 
Contributions of Multiple TTubules and Membrane Ca2+ Flux Localization to SubCellular Ca2+ Signaling in Rabbit Ventricular Myocytes
2011 
Contributions of Structural TTubule Heterogeneities and Membrane Ca2+ Flux Localization to Local Ca2+ Signaling in Rabbit Ventricular Myocytes
2011 
Modeling Calcium Sparks in a ThreeDimensional Reconstruction of a Cardiac Calcium Release Unit
2012 
βARStimulation Causes EADs But Not DADs in PreFailure CAMKIIδC Transgenic Myocytes
Biophysical Society annual meeting, 2012 
Modeling Calcium Dynamics in Realistic Rabbit Ventricular Myocytes With Several Transverse Tubules
2012 
Altered Configurations of Ca2+ Release Units Cause Slowed Ca2+ Sparks in Failing Cardiomyocytes
2012
Public Outreach

SupercomputingEnabled Study of Subcellular Calcium Dynamics
2014
Geir Halnes
Articles in International Journals

An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Chapters in Books

Astrocytic Ion Dynamics: Implications for Potassium Buffering and Liquid Flow
in Computational Geoscience, Springer, 2017
Monica Hanslien
Articles in International Journals

An Unconditionally Stable Numerical Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
Mathematical Biosciences, vol. 208, pp. 375—392, 2007 
A Note on Discontinues Rate Functions for the Gate Variables in Mathematical Models of Cardiac Cells
Procedia Computer Science, vol. 1, pp. 945—950, 2008 
An Unconditionally Stable Second Order Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
International Journal of Numerical Analysis and Modeling, vol. 6, pp. 627—641, 2009 
Numerical Solution of the Bidomain Equations
Philosophical Transactions of the Royal Society A, vol. 367, pp. 1931—1951, 2009 
Stability of Two TimeIntegrators for the AlievPanfilov System
International Journal of Numerical Analysis and Modeling, vol. 8, pp. 427—442, 2011
Talks

Stable Numerical Methods for Cell Models Used in Simulations of Ventricular Defibrillation
Talk at CBC, Seminar on Electrophysiology Modeling, 2007
Victor Haughton
Articles in International Journals

Idiopathic Syringomyelia: PhaseContrast MR of Cerebrospinal Fluid Flow Dynamics at Level of Foramen Magnum
Radiology, vol. 253, pp. 184—190, 2009, [DOI] 
Motion of the Cerebellar Tonsils in the Foramen Magnum During the Cardiac Cycle
American Journal of Neuroradiology, vol. 30, pp. 1587—1588, 2009 
Characterization of CSF Hydrodynamics in the Presence and Absence of Tonsillar Ectopia by Means of Computational Flow Analysis.
American Journal of Neuroradiology, vol. 30, pp. 941—946, 2009 
CSF Flow Dynamics at the CranioVertebral Junction Studied With an Idealized Model of the Subarachnoid Space and Computational Flow Analysis
American Journal of Neuroradiology, vol. 31, pp. 185—192, 2009 
Accuracy and Reproducibility of PhaseContrast MR Imaging Measurements for CSF Flow
American Journal of Neuroradiology, vol. 31, pp. 1331—1336, 2010 
Peak CSF Velocities in Patients With Symptomatic and Asymptomatic Chiari I Malformation
American Journal of Neuroradiology, vol. 31, pp. 1837—1841, 2010 
Characterization of Cyclical CSF Flow in the Foramen Magnum and Upper Cervical Spinal Canal With MR Flow Imaging and Computational Fluid Dynamics
American Journal of Neuroradiology, vol. 31, pp. 997—1002, 2010, [DOI] 
CSF Flow Through the Upper Cervical Spinal Canal in Chiari I Malformation
American Journal of Neuroradiology, vol. 32, pp. 1149—1153, 2011, [DOI] 
Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
CSF Flow in Chiari I and Syringomyelia From the Perspective of Computational Fluid Dynamics
The Neuroradiology Journal, vol. 24, pp. 20—23, 2011 
PatientSpecific 3D Simulation of Cyclic CSF Flow at the CranioCervical Region
American Journal of Neuroradiology, vol. 33, pp. 1756—1762, 2012 
Estimation of CSF Flow Resistance in the Upper Cervical Spine
The Neuroradiology Journal, vol. 3, pp. 49—53, 2013 
Simulating CSF Flow Dynamics in the Normal and the Chiari I Subarachnoid Space During Rest and Exertion
American Journal of Neuroradiology, vol. 34, pp. 41—15, 2013 
Effect of the Central Canal in the Spinal Cord on Fluid Movement Within the Cord
The Neuroradiology Journal, vol. 26, pp. 585—590, 2013 
Spinal Fluid Biomechanics and Imaging: an Update for Neuroradiologists
American Journal of Neuroradiology, vol. 35, pp. 1864—1869, 2014, [DOI] 
Effect of CranioVertebral Decompression on CSF Dynamics in Chiari I Malformation Studied With Computational Fluid Dynamics
Journal of Neurosurgery, vol. 21, pp. 559—564, 2014 
Numerical Simulations of the Pulsating Flow of Cerebrospinal Fluid Flow in the Cervical Spinal Canal of a Chiari Patient
Journal of Biomechanics, vol. 47, pp. 1082—90, 2014 
Poroelastic modeling of Syringomyelia – a systematic study of the effects of pia mater, central canal, median fissure, white and gray matter on pressure wave propagation and fluid movement within the cervical spinal cord
Computer Methods in Biomechanics and Biomedical Engineering, vol. 19, pp. 686—698, 2015, [DOI]
Chapters in Books

Cerebrospinal fluid flow in adults.
in Handbook of clinical neurology, Edited by , Elsevier, pp. 591—603, 2016
Refereed Proceedings

Effect of Tonsilar Position on Cerebrospinal Fluid Flow in the Spinal Subarachnoid Space Studied With Computational Fluid Dynamics
in ASNR  47th Annual Meeting of the American Society of Neuroradiology, 2009 
Porous and Viscous Flow Modeling on the Study of Cyst Development in the Human Spinal Cord
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
Cerebrospinal Fluid Flow Characteristics at Double Heart Rate
in Neuroradiology, 53 (Suppl. 1), S33, 35th European Soc of Neuroradiology ann. meeting, Antwerpen, Belgium, 2011 
The Effect of Varying CrossSectional Areas on Cerebrospinal Fluid Flow and Pressure in the Cervical Spine
in MekIT'11. Sixth national conference on Computational Mechanics, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011
Conference Proceedings

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
in 21st Nordic Seminar on Computational Mechanics, 2008 
CSF Flow in Chiari I and Syringomyelia  From the Perspective of Fluid Dynamics
in Proceedings of the XIX Symposium Neuroradiologicum, Bologna, Italy, 2010
Talks

Imaging the Craniovertebral Juction
Talk at the 35th Annual Course on Computed Tomography and Magnetic Resonance Imaging of the Brain RushPresbyterian, Chicago, 2008 
The Chiari I Malformation From the Perspective of Hans Chiari
Talk at the Chiari Conference, Northwest Research and Education Institute, 2008 
The Chiari I Malformation From the Perspective of Modern Imaging
Talk at the Chiari Conference, Northwest Research and Education Institute, 2008 
CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Chiari Malformation  the Problem and a Mathematical Approach
Invited talk, Vindern Medical Center, 8th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow in Normal and Chiari Subjects
talk, Seminar at CBC (Simula Research Laboratory), 16th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow Simulations  Normal Subjects and Patients With Chiari I Malformation
talk, Seminar at CBC (Simula Research Laboratory), 31st of October, Oslo, Norway), 2008 
MRI Research and Techniques for CSF Flow
ASAP's Chiari & Syringomyelia Conference: Quest for Understanding, 2009 
CSF Flow in the Chiari I Malformation Evaluated With PC MR and Computation Flow Design
Nordic Society of Neuroradiology, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
Imaging Evaluation of the Chiari I Malformation
Meeting and symposium of the American Syringomyelia Alliance Project, 2009 
Cerebrospinal Fluid Flow Investigations With Modelling and Simulation
invited talk at The Chiari Institute, 14th of January, New York, U.S.A., 2009 
Simulating Normal and Abnormal CSF Flow With Idealized Geometries
talk, seminar on cerebrospinal fluid flow, 16th of January, University of Wisconsin, U.S.A., 2009 
Tonsilar Herniation  How Is the CSF Flow Influenced?
Invited talk at Rikshospitalet University Hospital, Oslo, Norway, 5th of June, 2009 
Cerebrospinal Fluid (CSF)  Oscillating Flow and Pressure
CBC Workshop on Aerosols: Dispersion, Transport and Effects, Simula, November 10, 2010 
CSF Hydrodynamic in Patients With Syringomyelia and Chiari I Malformations
Annual NUPUS meeting in Freudenstadt, 2010 
On Cerebrospinal Fluid Flow
CBC Workshop on Cerebrospinal Fluid Flow in the Brain and Spinal Canal  Clinical, Experimental and Mathematical Models and Problems, Simula, May 28, 2010 
Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011 
Ongoing Research: Characterize CSF Flow and Identify the Cause of Syringomyelia With CFD
The workshop Working Toward a Day Without Pain Gala, Buffalo, 2011 
CSF Flow Dynamics: Effects of Viscosity and Inertia
ANSR 2012, New York, 2012 
CSF Flow: Acquisition Strategies
Lecture at International Society of Magnetic Resonance in Medicine, Orlando, FL, 2012 
On the Assumption of Laminar Flow of CSF in Chiari Patients
international Chiari Research Group, 2014 
Effect of Spinal Cord Viscoelasticity on Its Response to CSF Pressure Waves: a Computational Study
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, Chicago, Illinois, 2015 
Role of CSF flow in the pathogenesis of Syringomyelia
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, 2015; Chicago, Illinois, 2015 
Simulating Cerebrospinal Fluid Flow and Spinal Cord Movement Associated with Syringomyelia
Chalmers Institute of Technology, 2016 
Physics of oscillatory CSF Flow
ASSR, San Diego, 2017
Anders Helgeland
Articles in International Journals

Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
Simulating CSF Flow Dynamics in the Normal and the Chiari I Subarachnoid Space During Rest and Exertion
American Journal of Neuroradiology, vol. 34, pp. 41—15, 2013 
Effect of CranioVertebral Decompression on CSF Dynamics in Chiari I Malformation Studied With Computational Fluid Dynamics
Journal of Neurosurgery, vol. 21, pp. 559—564, 2014 
Numerical Simulations of the Pulsating Flow of Cerebrospinal Fluid Flow in the Cervical Spinal Canal of a Chiari Patient
Journal of Biomechanics, vol. 47, pp. 1082—90, 2014
Refereed Proceedings

Cerebrospinal Fluid Flow Characteristics at Double Heart Rate
in Neuroradiology, 53 (Suppl. 1), S33, 35th European Soc of Neuroradiology ann. meeting, Antwerpen, Belgium, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011
Talks

PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
On the Assumption of Laminar Flow of CSF in Chiari Patients
international Chiari Research Group, 2014
Leif Rune Hellevik
Articles in International Journals

An Assessment of Ductus Venosus Tapering and Wave Transmission From the Fetal Heart
Biomechanics and Modeling in Mechanobiology, vol. 8, pp. 509—517, 2009, [DOI] 
Impact of Pulmonary Venous Locations on the IntraAtrial Flow and Mitral Plane Velocity Profile
Cardiovascular Engineering and Technology, vol. 3, pp. 2069—281, 2012 
FSISimulation of Asymmetric Mitral Valve Dynamics During Diastolic Filling
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 121—130, 2012 
Application of a Strong FSI Coupling Scheme for the Numerical Simulation of Bileaflet Mechanical Heart Valve Dynamics: Study of Wall Shear Stress on the Leaflets
Progress in Computational Fluid Dynamics, vol. 12, pp. 68—80, 2012 
Human Ductus Venosus Velocity Profiles in the First Trimester
Cardiovascular Engineering and Technology, vol. 4, pp. 257—266, 2013, [DOI] 
A Fast Strong Coupling Algorithm for the Partitioned FluidStructure Interaction Simulation of BMHVs
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 1281—1312, 2013 
Stochastic sensitivity analysis for timing and amplitude of pressure waves in the arterial system
International Journal for Numerical Methods in Biomedical Engineering, vol. 31, 2015, [DOI] 
A benchmark study of numerical schemes for onedimensional arterial blood flow modelling
International Journal for Numerical Methods in Biomedical Engineering, vol. 31, pp. 1—33, 2015, [DOI] 
Cardiovascular hemodynamics: Advancement of numerical and experimental diagnostic tools
Advances in Mechanical Engineering, vol. 7, pp. 1—3, 2015, [DOI] 
A guide to uncertainty quantification and sensitivity analysis for cardiovascular applications
International Journal for Numerical Methods in Biomedical Engineering, vol. 32, 2016, [DOI] 
Roadmap for cardiovascular circulation model
American Journal of Physiology, 2016, [DOI] 
Effects of arterial wall models and measurement uncertainties on cardiovascular model predictions
Journal of Biomechanics, 2017, [DOI]
Refereed Proceedings

A FirstApproach Towards PatientSpecific 2D FSISimulation of Mitral Valve Dynamics During Diastolic Filling
in MekIT07, Fourth national conference on Computational Mechanics, 2007 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
in 8th world Congress on Computational Mechanics/5th European Congress on Computational Methods in Applied sciences and Engineering, Venice, Italy, 2008 
On Material Modelling of Umbilical Vein
in Fifth National Conference on Computational Mechanics (MekIT´09), 2009 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Initial Study on Material Modeling of Umbilical Veins in Fetal Sheep
in 6th World Congress of Biomechanics, 2010 
FSI Simulation of the Mitral Valve With Contact and Active Anisotropic Material Models
in 6th World Congress of Biomechanics, 2010 
A Strong Coupling FSI Scheme for Simulating BMHV Dynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
A Biomechanical Model for Human Umbilical Veins and Wharton's Jelly
in 8th International Conference on Computational Fluid Dynamics in the Oil & Gas, Metallurgical and Process Industries, 2011 
Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
in 4th International Conference on Computational and Mathematical Biomedical Engineering (CMBE), Paris, June 29July 3, 2015 
Towards robust clinical assessment of arterial compliance
in 28th Nordic Seminar on Computational Mechanics, 2015 
Uncertainty quantification of short term baroreflex regulation of blood pressure
in CMBE15, 4th International Conference on Computational & Mathematical Biomedical Engineering, 2015 
A Validation of Coupling Carotid and Aortic Baroreflex Models to a 1D Blood Flow Model of the Systemic Arterial Tree
in ICCB 2015, VI International Conference on Computational Bioengineering, 2015 
Uncertainty quantification and sensitivity analysis for wave propagation models of the arterial systemic circulation
in ICCB 2015, VI International Conference on Computational Bioengineering, Barcelona, 2015, 2015
Conference Proceedings

Stochastic arterial flow simulations
in Proceedings of the 27th Nordic Seminar on Computational Mechanics, 2014 
Effects of parametric uncertainty in blood flow simulations
in Virtual Physiological Human Conference 2014, Trondheim, 2014
Talks

Wave Propagation in the Human Fetal Ductus VenosusUmbilical Vein Bifurcation
Talk at Reproductive Bioengineering, Wenns im Piztal, Austria, 2008 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
Presented at 8th.World Congress on Computational Mechanics (WCCM8)/5th European Congress on Computational Methods in Applied Sciences and Engineeering (ECCOMAS 2008), Venice, Italy, 2008 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
Talk at MekIT'09, Trondheim, May 27th, 2009 
Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
4th International Conference on Computational and Mathematical Biomedical Engineering, France, 2015 
Towards robust clinical assessment of arterial compliance
28th Nordic Seminar on Computational Mechanics, 2015 
Plenary Lecture: Computational models for the cardiovascular system and uncertainty quantification
28th Nordic Seminar on Computational Mechanics (NSCM28), Tallinn, Estonia, 2015, October 2223, 2015
Susanne Hentschel
Articles in International Journals

Computational Vascular fluidstructure Interaction: Methodology and Application to Cerebral Aneurysms
Biomechanics and Modeling in Mechanobiology, vol. 9, pp. 481—498, 2010, [DOI] 
Characterization of Cyclical CSF Flow in the Foramen Magnum and Upper Cervical Spinal Canal With MR Flow Imaging and Computational Fluid Dynamics
American Journal of Neuroradiology, vol. 31, pp. 997—1002, 2010, [DOI]
Conference Proceedings

PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
in 21st Nordic Seminar on Computational Mechanics, 2008
Talks

PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Scientific Computing at Simula
Invited Talk at Workshop on Cerebral Aneurysms and Subarachnoidal Hemorrhage, Tromsø Jan 2426, 2008 
Blood Flow Computations at Simula
Invited talk at Medical Physics, University of Wisconsin, March 11., 2008 
Cerebral Blood Flow
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009, 2009 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
PatientSpecific Hemodynamics in FEniCS
Invited talk at the minisymposium on Computational Vascular and Cardiovascular Mechanics at USNCCM 2009, 2009 
PatientSpecific Hemodynamics in FEniCS
Presentation at the FEniCS 09 Workshop, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009
S. Hetzel
Articles in International Journals

Peak CSF Velocities in Patients With Symptomatic and Asymptomatic Chiari I Malformation
American Journal of Neuroradiology, vol. 31, pp. 1837—1841, 2010
Karl Erik Holter
Articles in International Journals

Interstitial Solute Transport in 3D Reconstructed Neuropil Occurs by Diffusion Rather than Bulk Flow
PNAS, 2017
Talks

Simulating the fluid flow of the lymphatic system  extracellular fluid flow
The 4th CSF symposium, Atlanta, 2017
Kartik Jain
Articles in International Journals

Direct numerical simulations of transitional hydrodynamics of the cerebrospinal fluid in Chiari I malformation – the role of craniovertebral junction
International Journal for Numerical Methods in Biomedical Engineering, 2016 
Transitional hemodynamics in intracranial aneurysms  Comparative velocity investigations with high resolution Lattice Boltzmann simulations, normal resolution ANSYS simulations and MR imaging
Medical Physics, vol. 43, 2016
Refereed Proceedings

Exploring The Critical Reynolds Number For Transition In Intracranial Aneurysms–highly Resolved Simulations Below Kolmogorov Scales
in 4th International Conference on Computational and Mathematical Biomedical Engineering  CMBE2015, 2015
Theses

Transition to Turbulence in Physiological Flows: Direct Numerical Simulation of Hemodynamics in Intracranial Aneurysms and Cerebrospinal Fluid Hydrodynamics in the Spinal Canal
Ph.D. Thesis, UniPrint, University of Siegen, 2016
Talks

Cerebrospinal Fluid Flow in Association With the Central Nervous System  Chiari and Drug Delivery
MS on Computational Biomechanics, WCCMECCMECCOM, 2014 
Direct numerical simulations expose fluctuations in the cerebrospinal fluid hydrodynamics of Chiari malformation
ECI conference on CFD in Medicine and Biology II, Albufeira, Portugal, 2015, September, 2015 
On the modeling of transitional physiological flows
ECCOMAS Young Investigators Conference, Aachen, Germany, 2015, July, 2015 
Exploring the critical Reynolds number for transition in intracranial aneurysms
Computational and mathematical biomedical engineering, Cachan, France, 2015, July, 2015 
Assessment and quantification of transitional flow in intracranial aneurysms
Summer biomechanics, bioengineering and biotransport conference, Utah, USA, 2015, June, 2015 
On the complexity of the Cerebrospinal fluid flow in the upper spinal column – is the assumption of laminar flow appropriate?
Cerebrospinal Fluid Dynamics Society Meeting, Amiens, 2015 
Experimental investigation of transitional effects at low Reynolds number in blood vessels  Xray, microphones and simulations
CMBE 2017, Pittsburgh, 2017
August Johansson
Articles in International Journals

Blockwise Adaptivity for Time Dependent Problems Based on Coarse Scale Adjoint Solutions
SIAM Journal on Scientific Computing, vol. 32, pp. 2121—2145, 2010 
A High Order Discontinuous Galerkin Nitsche Method With Fictitous Boundary
Numerische Mathematik, vol. 123, pp. 607—628, 2013, [DOI] 
Adaptive Finite Element Solution of Multiscale PDEODE Systems
Computer Methods in Applied Mechanics and Engineering, vol. 287, pp. 150—171, 2015 
The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
High order cut finite element methods for the Stokes problem
Advanced Modeling and Simulation in Engineering Sciences, vol. 2, 2015, [DOI] 
A threedimensional coupled Nitsche and level set method for electrohydrodynamic potential flows in moving domains
Journal of Computational Physics, vol. 309, pp. 88—111, 2016
Refereed Proceedings

Computing through singularities in potential flow with applications to electrohydrodynamic problems
in The 19th European Conference on Mathematics for Industry, 2016
Conference Proceedings

Shape Optimization with Multiple Meshes
in FEniCS Conference 2017, 2017
Talks

A fully 3D hybrid Nitsche and Level Set methods for electrohydrodynamic potential flows in moving domains
6th European Conference on Compuational Fluid Dynamics, Barcelona, 2014 
A High Order Nitsche Cut Finite Element Method for Elliptic Problems
27th Nordic Seminar on Computational Mechanics, 2014 
Blockwise Adaptive Finite Element Solution of a Coupled PDEODE System
Chalmers University of Technology, 2014 
Usable Structured Meshes: How to do efficient adaptivity and how to handle complex geometries
Center for Biomedical Computing, 2014 
In and Out of Tune
Center for Biomedical Computing, 2014 
A High Order DG Cut Finite Element Method for Elliptic Problems
Simula Research Laboratory, 2014 
A short introduction to discontinuous PetrovGalerkin methods
Biocomp seminar, 2014 
High Order Cut Finite Elements Methods
SIAM CSE 15, Salt Lake City, 2015 
High Order Cut Finite Element Methods for the Stokes Problem using Fenics Multimesh Features
FEniCS '15, London, 2015 
Nitsche Cut Finite Element Methods with Higher Order Elements
USNCCM13, San Diego, 2015 
Cut composite mesh methods
Enumath 2015, Ankara, 2015 
MultiMesh: FEM on arbitrarily many intersecting meshes
Crete, Greece, 2016 
Automatic Adjoints of Multimesh Finite Element Discretisations
Atlanta, USA, 2017 
Shape Optimization with Multiple Meshes
Luxenbourg, 2017 
Optimization Problems in Dynamical Domains with Unfitted Meshes
XDMS 2017, Umeå, 2017 
High order methods on arbitrarily many intersecting meshes: Multimesh
FEF 2017, Rome, 2017 
FEM on arbitrarily many intersecting meshes: Multimesh
European Finite element fair, 2017, Milano, 2017
Siri Kallhovd
Articles in International Journals

Adjointbased estimation of cardiac activation times
International Journal for Numerical Methods in Biomedical Engineering, 2017
Refereed Proceedings

Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythmogenic cardiomyopathy
in EHealth and Bioengineering Conference (EHB), 2015
Theses

Computational tools for clinically driven models of cardiac electromechanics
Ph.D. Thesis, University of Oslo, 2017
Talks

Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
VPH 2014, Trondheim, Norway, 2014 
Significance of passive material parameters in mechanical models of the heart
Lugano, Switzerland, 2015 
Impact of material parameter uncertainty on stress in patient specific models of the heart
SIAM Conference on uncertainty quantification, Lausanne, Switzerland, 2016 
Impact of material parameter variations on stress in patient specific models of the heart
World Congress on Computational Mechanics, Seoul, South Korea, 2016
Posters

Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Biophysical Society 58th Annual Meeting, 2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Copenhagen Meeting on Cardiac Arrhythmia, May 1922, 2014, 2014
Kenneth Hvistendah Karlsen
Articles in International Journals

An Explicit Finite Difference Scheme for the CamassaHolm Equation
Advances in Differential Equations, vol. 13, pp. 681—732, 2008 
A Convergent Nonconforming Finite Element Method for Compressible Stokes Flow
SIAM Journal on Numerical Analysis, vol. 48, pp. 1846—1876, 2010, [DOI]
Stavros C. Kassinos
Articles in International Journals

Direct Simulation of the Limiting Flux: I. Interpretation of the Experimental Results
Journal of Membrane Science, vol. 337, pp. 81—91, 2009, [DOI] 
Analytic Models of Heterogenous Magnetic Fields for Liquid Metal Flow Simulations
Theoretical and Computational Fluid Dynamics, vol. 23, pp. 571—578, 2009, [DOI] 
Lagrangian Particle Dispersion in Turbulent Flow Over a Wall Mounted Obstacle
International Journal of Heat and Fluid Flow, vol. 30, pp. 462—470, 2009, [DOI] 
Immersed Boundary Method for the MHD Flows of Liquid Metals
Journal of Computational Physics, vol. 228, pp. 903—920, 2009 
MHD Flow Past a Circular Cylinder Using the Immersed Boundary Method
Computers & Fluids, vol. 39, pp. 345—358, 2010, [DOI]
Refereed Proceedings

Lagrangian Particle Dispersion in Turbulent Flow Over a Wall Mounted Obstacle
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
Efficient Simulations of Wall Bounded Magnetohydrodynamics Flows
in 6th GRACN International Congress on Computational Mechanics, 2008 
Modeling Particle Deposition in the Human Lungs
in 6th GRACM International Congress on Computational Mechanics, 2008 
Using LES to Model Turbulent Particle Transport in Lungs
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
CFD Modeling of Turbulent Flow and Particle Deposition in Human Lungs
in Conference Proceedings of the International Conference of IEEE Engineering in Medicine and Biology Society (2009), 2009 
Extension of the Immersed Boundary Method for LiquidMetal Magnetohydrodynamics
in Immersed Boundary Methods: Current status and Future Research Directions, 2009 
Turbulent Effects of Liquid Metal Flow Under Strong Fringing Magnetic Fields
in 6th International Symposium on Turbulence and Shear Flow Phenomena, 2009 
Using LES to Model Turbulent Particle Transport in Human Lungs
in The 6th International Symposium on Turbulence and Shear Flow Phenomena (TSFP6), 2009 
Numerical Modeling of Turbulent Airflow and Particle Deposition in a Bifurcating Airway Model
in World Congress on Medical Physics and Biomedical Engineering, September 7  12, 2009, Munich, Germany, 2010
Benjamin Kehlet
Articles in International Journals

The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
A posteriori error analysis of roundoff errors in the numerical solution of ordinary differential equations
Numerical Algorithms, vol. 76, 2017, [DOI] 
Interstitial Solute Transport in 3D Reconstructed Neuropil Occurs by Diffusion Rather than Bulk Flow
PNAS, 2017
Refereed Proceedings

A Reference Solution for the Lorenz System on [0, 1000]
in AIP Conference Proceedings, 2010 
Automatically Generated Solvers for Variational Formulations of TimeDependent Partial Differential Equations
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Quantifying the Computability of the Lorenz System
in Proceedings of the VI International Conference on Adaptive Modeling and Simulation (ADMOS 2013), 2013
Talks

Analysis and Implementation of HighPrecision Finite Element Methods for Ordinary Differential Equations With Application to the Lorenz System
AC/DC seminar series, 2010 
Meshbuilder Brainstorming
AC/DC seminar series, 2010 
A Reference Solution for the Lorenz System on [0, 1000]
8th International Conference of Numerical Analysis and Applied Mathematics (ICNAAM), Rhodes, Greece, September 1925, 2010 
Code Generation for ODEs
Talk at Biocomp Seminar, Simula Research Laboratory, 2011 
Code Generation for Time Dependent Problems
Talk at FEniCS'11 / Red Raider Minisymposium 2011, Texas Tech University, Lubbock, 2011 
Robust Mesh Generation
CBC Seminar series, 2012 
Quantifying the Computability of the Lorenz System
International Conference on Adaptive Modeling and Simulation (ADMOS2013), 2013 
Mshr  Mesh Generation in FEniCS
Talk at FEniCS'14 workshop in Paris, 2014 
Towards a Unified Framework for Automated a Posteriori Error Estimation and Adaptivity in SpaceTime
SIAM CSE, Salt Lake City, USA, 2015 
Implicitly adaptive time stepping
Oslo, Simula Research Laboratory, 2015 
High order methods on arbitrarily many intersecting meshes: Multimesh
FEF 2017, Rome, 2017 
FEM on arbitrarily many intersecting meshes: Multimesh
European Finite element fair, 2017, Milano, 2017
Public Outreach

Små feil, store konsekvenser
Åpen dag, Universitetet i Oslo, 2015
Owais Mohammad Khan
Articles in International Journals

Narrowing the Expertise Gap for Predicting Intracranial Aneurysm Hemodynamics: Impact of Solver Numerics versus Mesh and TimeStep Resolution
American Journal of Neuroradiology, vol. 36, 2015 
The Computational Fluid Dynamics Rupture Challenge 2013—Phase II: variability of hemodynamic simulations in two intracranial aneurysms
Journal of Biomechanical Engineering, vol. 137, pp. 121008/1—121008/13, 2015 
NonNewtonian versus Numerical Rheology: Practical Impact Of Shearthinning On The Prediction Of Stable And Unstable Flows In Intracranial Aneurysms.
International Journal for Numerical Methods in Biomedical Engineering, 2016 
On the Quantification and Visualization of Transient Periodic Instabilities in Pulsatile Flows
Journal of Biomechanics, 2016 
Cerebral aneurysm blood flow simulations: There’s solver settings and then there’s solver settings
Journal of Biomechanics, 2017
Refereed Proceedings

Numerical Resolution Requirements for Converging Wall Shear Stresses in Intracranial Aneurysms
in World Congress of Biomechanics Proceedings, 2014 
CFD Simulation of Transition to Turbulence for Newtonian vs. NonNewtonian Flow Through a Stenosis
in The Summer Biomechanics, Bioengineering & Biotransport Conference, 2015 
Impact of NonNewtonian Rheology in Transition to Turbulence in Artery Models.
in 4th International Conference on Computational and Mathematical Biomedical Engineering, 2015 
Effects of nonNewtonian rheology on transition to turbulence
in The 2015 AMMCSCAIMS Congress, 2015 
Proper Orthogonal Decomposition Analyses of HighFrequency Transient Flow Instabilities in Intracranial Aneurysms
in American Physical Society Division of Fluid Dynamics, 2016 
NonNewtonian versus Numerical Rheology: Practical Impact Of Shearthinning On The Prediction Of Stable And Unstable Flows In Intracranial Aneurysms.
in American Society of Mechanical Engineers Summer Biomechanics, Bioengineering and Biotransport Conference, 2016
Theses

Numerical characterization of highfrequency flow fluctuations in intracranial aneurysms
Ph.D. Thesis, 2017
Talks

CFD Modelling of Cerebrovascular Hemodynamics: Breaking News
9th international symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, Montreal, Canada, April, 2014, 2014 
On Numerical Methods for Transitional Flow  Application to Blood Flow in Aneurysms
Quality and Validation of Computational Cardiovascular Biomechanics, WCCMECCMECCOM, 2014 
It's not the size, but what you do with it: CFD solver settings trump model resolution.
Zurich, 2014
Timo Klock
Talks

Support Recovery in Unmixing Problems using MultiPenalty Regularization
Hangzhou, 2017
Posters

Exact support recovery in unmixing problems by an altered Lassopath algorithm for multipenalty functionals
2017
Jussi Koivumäki
Articles in International Journals

Benchmarking Electrophysiological Models of Human Atrial Myocytes
Frontiers in Computational Physiology and Medicine, vol. 3, 2013 
NS5806 Partially Restores Action Potential Duration But Fails to Ameliorate Calcium Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace, vol. 16, pp. iv46—iv55, 2014 
Variable TTubule Organization and Ca2+ Homeostasis Across the Atria
Heart and Circulatory Physiology, vol. 307, pp. H609—H620, 2014 
In Silico Screening of the Key Cellular Remodeling Targets in Chronic Atrial Fibrillation
PLoS Computational Biology, vol. 10(5), 2014 
Investigations of the NaVβ1b Sodium Channel Subunit in Human Ventricle; Functional Characterization of the H162P Brugada Syndrome Mutant
Heart and Circulatory Physiology, vol. 306, pp. H1204—H1212, 2014 
Na+ Current Expression in Human Atrial Myofibroblasts: Its Identity and Functional Consequences
Frontiers in Physiology, vol. 5, pp. 275, 2014 
Calcium Signaling in Developing Cardiomyocytes: Implications for Model Systems and Disease
The Journal of Physiology, vol. 593, pp. 1047—1063, 2015, [DOI]
Chapters in Books

Calcium Dynamics
in Encyclopedia of Applied and Computational Mathematics, Edited by , Springer, pp. 169—170, 2015
Talks

Computational Modeling of Intracellular Calcium Dynamics in Human Atrial Myocytes: Impact on Action Potential Morphology
Seminar at the Technical University of Dresden, Germany, 2011 
Divergent Action Potential Morphology in Human Atrial Cells Vs. Tissue: Underlying Ionic Mechanisms
Computing in Cardiology conference, 2012 
Calcium Buffering in Human Atrial Myocytes
CaMoUCSD Workshop, San Diego, USA, 2012 
ExcitationContraction Coupling in Human Atrial Myocytes: Remodeling in Atrial Fibrillation
Seminar at the Institute of Biomedical Engineering, KIT, Germany, 2012 
ReParametrisation of Atrial INa: INa,late and DV/dtmax Dependence on RMP As Test Cases
NECCEVISEE Workshop, 2013 
Human Atrial Myocyte Studies in Silico
NECCEVISEE Workshop, 2013 
Action Potential Repolarisation in Healthy and Fibrillating Human Atria: Contribution of Small Conductance CalciumActivated Potassium Channels
Conference of the Scandinavian Physiological Society, 2014 
Computational Models of Cardiac Electrophysiology in Healthy and Fibrillating Human Atria
Seminar at the Institute of Experimental and Clinical Pharmacology and Toxicology, UKE, Hamburg, 2014
Posters

Excitationcontraction Coupling in Human Atrial Myocytes: Remodeling in Atrial Fibrillation
2011 
RateDependent Regulation of Sarcoplasmic Reticulum Ca2+ ATPase in Human Atrial Myocytes
2011 
Divergent Action Potential Morphology in Human Atrial Cells Vs. Tissue: Underlying Ionic Mechanisms
2012 
NS5806 Partially Restores APD But Fails to Ameliorate Ca2+ Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace 2014, 2013 
Ca2+Transient Dysfunction and Ion Channel Therapy: What Can We Gather From a Computational Model of Canine Heart Failure?
, 2013 
Mechanisms Promoting Chronic Atrial Fibrillation: Role of Remodelled Intracellular Calcium Handling and Cellular Hypertrophy
2013 
The Controversial Late INa in Human Atrial Myocytes: a Computational Analysis of Ranolazine's Effects
2013 
Action Potential Repolarisation in Healthy and Fibrillating Human Atria: Contribution of Small Conductance CalciumActivated Potassium Channels
2014
Miroslav Kuchta
Articles in International Journals

Preconditioners for saddle point systems with trace constraints coupling 2D and 1D domains
SIAM Journal of Scientific Computing, vol. 38, 2016 
A numerical investigation of intrathecal drug and gene vector dispersion within the cervical subarachnoid space
Plos One, 2017, [DOI]
Refereed Proceedings

A Second Order Fast Sweeping Method for the Eikonal Equation Based on Minimization
in The Nordic Seminar on Computational Mechanics, 2013 
Characterization of the space of rigid motions in arbitrary domains
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
BENDPY: Python framework for computing bending of complex platebeam systems
in MekIT'15 8th National Conference on Computational Mechanics, 2015
Theses

Preconditioners for Singular Problems and Coupled Problems with Domains of Different Dimensionality
Ph.D. Thesis, 2017
Talks

Solving singular problems. The right way.
FEniCS'16 Workshop, Simula Research Laboratory, Oslo, Norway, 2016
Nina Kylstad
Talks

Effect of Spinal Cord Viscoelasticity on Its Response to CSF Pressure Waves: a Computational Study
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, Chicago, Illinois, 2015
Jérémie Lagravière
Refereed Proceedings

On the Performance and Energy Efficiency of the PGAS Programming Model on Multicore Architectures
in High Performance Computing & Simulation (2016)  International Workshop on Optimization of Energy Efficient HPC & Distributed Systems, 2016
Technical Reports

Is PGAS ready for the challenge of energy efficiency? A study with the NAS benchmark.
UiT, 2015
Johannes Langguth
Articles in International Journals

Parallel performance modeling of irregular applications in cellcentered finite volume methods over unstructured tetrahedral meshes
Journal of Parallel and Distributed Computing, vol. 76, pp. 120—131, 2015, [DOI] 
Scalable heterogeneous CPUGPU computations for unstructured tetrahedral meshes
IEEE Micro, vol. 35, pp. 6—15, 2015, [DOI] 
Accelerating Detailed TissueScale 3D Cardiac Simulations Using Heterogeneous CPUXeon Phi Computing
International Journal of Parallel Programming, pp. 1—23, 2016, [DOI]
Refereed Proceedings

Heterogeneous CPUGPU Computing for the Finite Volume Method on 3D Unstructured Meshes
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014 
CPU+GPU Programming of Stencil Computations for ResourceEfficient Use of GPU Clusters
in IEEE 18th International Conference on Computational Science and Engineering, 2015 
Optimizing Approximate Weighted Matching on Nvidia Kepler K40
in IEEE International Conference on High Performance Computing (HiPC), 2015 
Towards Detailed TissueScale 3D Simulations of Electrical Activity and Calcium Handling in the Human Cardiac Ventricle
in The 15th International Conference on Algorithms and Architectures for Parallel Processing (ICA3PP 2015), 2015 
On the Performance and Energy Efficiency of the PGAS Programming Model on Multicore Architectures
in High Performance Computing & Simulation (2016)  International Workshop on Optimization of Energy Efficient HPC & Distributed Systems, 2016 
Enabling TissueScale Cardiac Simulations Using Heterogeneous Computing on Tianhe2
in IEEE 22nd International Conference on Parallel and Distributed Systems (ICPADS), 2016
Talks

Heterogeneous HPC solutions in cardiac electrophysiology
Lawrence Berkeley National Laboratory, Berkeley, CA, USA, 2016 
Hierarchical partitioning of unstructured meshes in cardiac electrophysiology
Third Workshop on Programming Abstractions for Data Locality (PADAL'16), Kobe, Japan, 2016 
Heterogeneous Manycore Simulations in Cardiac Electrophysiology
Tenth International Workshop on Programmability and Architectures for Heterogeneous Multicores (MULTIPROG2017), Stockholm, Sweden, 2017
Hans Petter Langtangen
Articles in International Journals

A Sharp Interface Finite Element Method for Elliptic Interface Problems; Formulation and Investigation in One Space Dimension
International Journal of Pure and Applied Mathematics, vol. 34, pp. 287—312, 2007 
A Finite Element Method for Modelling Electromechanical Wave Propagation in Anisotropic Piezoelectric Media
Communications in Computational Physics, vol. 2, pp. 271—292, 2007 
PulseInduced Acoustoelectric Vibrations in SurfaceGated GaAsBased Quantum Devices
Physical Review B: Condensed Matter and Materials Physics, vol. 75, 2007 
Tsunami Generation and Propagation From the Mjølnir Asteroid Impact
Metheoritics & Planetary Science, vol. 42, pp. 1473—1493, 2007 
Analysis of a 1D Incompressible TwoFluid Model Including Artificial Diffusion
IMA Journal of Applied Mathematics, vol. 73, pp. 651—667, 2008 
A Pseudospectral Fourier Method for a 1D Incompressible TwoFluid Model
International Journal for Numerical Methods in Fluids, pp. 639—658, 2008 
Unified Framework for Finite Element Assembly
International Journal of Computational Science and Engineering, vol. 4, pp. 231—244, 2009 
CSF Flow Dynamics at the CranioVertebral Junction Studied With an Idealized Model of the Subarachnoid Space and Computational Flow Analysis
American Journal of Neuroradiology, vol. 31, pp. 185—192, 2009 
Simplifying the Parallelization of Scientific Codes by a FunctionCentric Approach in Python
Computational Science & Discovery, vol. 3, pp. 015003, 2010, [DOI] 
A Lumped Particle Modeling Framework for Simulating Particle Transport in Fluids
Communications in Computational Physics, vol. 8, pp. 115—142, 2010 
A FEniCSBased Programming Framework for Modeling Turbulent Flow by the ReynoldsAveraged NavierStokes Equations
Advances in Water Resources, vol. 34, pp. 1082—1101, 2011, [DOI] 
Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
Particle Collisions in a Lumped Particle Model
Communications in Computational Physics, vol. 10, pp. 823—843, 2011, [DOI] 
CSF Flow in Chiari I and Syringomyelia From the Perspective of Computational Fluid Dynamics
The Neuroradiology Journal, vol. 24, pp. 20—23, 2011 
Direct Numerical Simulation of Transitional Flow in a PatientSpecific Intracranial Aneurysm
Journal of Biomechanics, vol. 44, pp. 2826—2832, 2011, [DOI] 
Efficient Block Preconditioners for the Coupled Equations of Pressure and Deformation in Highly Discontinuous Media
International Journal for Numerical and Analytical Methods in Geomechanics, vol. 35, pp. 1466—1482, 2011, [DOI] 
Simulation of the Distortion Mechanisms Due to NonUniform Cooling in the Aluminum Extrusion Process
International Journal of Thermal Sciences, vol. 52, pp. 50—58, 2012 
Simulation of Initial Cooling Rate Effect on the Extrudate Distortion in the Aluminum Extrusion Process
Applied Thermal Engineering, vol. 40, pp. 326—336, 2012 
Computational Aspects of Multiscale Simulation With the Lumped Particle Framework
Communications in Computational Physics, vol. 12, pp. 1257—1274, 2012 
Publishing Scientific Software Matters
Journal of Computational Science, vol. 4, pp. 311—312, 2013, [DOI] 
Numerical Simulation of Water Resources Problems: Models, Methods, and Trends
Advances in Water Resources, vol. 51, pp. 405—437, 2013, [DOI] 
Poroelastic modeling of Syringomyelia – a systematic study of the effects of pia mater, central canal, median fissure, white and gray matter on pressure wave propagation and fluid movement within the cervical spinal cord
Computer Methods in Biomechanics and Biomedical Engineering, vol. 19, pp. 686—698, 2015, [DOI] 
Chaospy: An open source tool for designing methods of uncertainty quantification
Journal of Computational Science, vol. 11, pp. 46 — 57, 2015, [DOI] 
Integrasjon av beregninger i fysikkundervisningen
Uniped, vol. 4, pp. 303 — 310, 2015 
Stochastic sensitivity analysis for timing and amplitude of pressure waves in the arterial system
International Journal for Numerical Methods in Biomedical Engineering, vol. 31, 2015, [DOI] 
High Performance Python for Direct Numerical Simulation of Turbulent Flows
Computer Physics Communications, vol. 203, pp. 53—65, 2016 
Computational Investigation of Cerebrospinal Fluid Dynamics in the Posterior Cranial Fossa and Cervical Subarachnoid Space in Patients with Chiari I Malformation
PLOS ONE, 2016 
Multivariate Polynomial Chaos Expansions with Dependent Variables
Accepted for publication in SIAM Journal on Scientific Computing, 2017
Books

Python Scripting for Computational Science
Springer, 2008 
A Primer on Scientific Programming With Python
Springer, 2009 
Elements of Scientific Computing
Springer, 2010 
A Primer on Scientific Programming With Python
Springer, 2011 
A Primer on Scientific Programming With Python
Springer, 2012 
A Primer on Scientific Programming with Python
Springer, 2014 
A Primer on Scientific Programming with Python
Springer, 2016 
Finite Difference Computing with Exponential Decay Models
Lecture Notes in Computer Science, Springer. Verlag, 2016 
Scaling of Differential Equations
Springer International Publishing, 2016 
Programming for Computations  A gentle Introduction to Numerical Simulations with MATLAB/Octave
Springer, 2016 
Programming for Computations  A Gentle Introduction to Numerical Simulations with Python
Springer, 2016 
Finite Difference Computing with PDEs
Springer, 2016
Chapters in Books

A Hybrid Approach to Efficient Finite Element Code Development
in Petascale Computing  Algorithms and Applications, Edited by , Chapman and Hall, 2007 
Past and Future Perspectives on Scientific Software
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 321—362, 2009 
Scientific Computing: Why  How  What  What's Next
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 237—248, 2009 
The Mjølnir Tsunami
in The Mjølnir Impact Event and its Consequences, Edited by , Springer, pp. 257—271, 2010 
Parallel Computing Engines for Subsurface Imaging Technologies
in Advanced Computational Infrastructures for Parallel and Distributed Adaptive Applications, Edited by , Wiley, pp. 29—43, 2010 
Simulation of Transitional Flows
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 419—438, 2012 
A FEniCS Tutorial
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 1—70, 2012 
Escaping the Zombie Threat by Mathematics
in Zombies in the Academy: Living Death in Higher Education, University of Chicago Press, 2013 
Scientific Computing
in Encyclopedia of Applied and Computational Mathematics, Edited by , SpringerVerlag, pp. 1302—1310, 2015 
Computational Partial Differential Equations
in Encyclopedia of Applied and Computational Mathematics, Edited by , SpringerVerlag, pp. 271—278, 2015
Refereed Proceedings

Making Hybrid Tsunami Simulators in a Parallel Software Framework
in International Workshop on Applied Parallel Computing (PARA'06), 2007 
Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow and Heat Transfer in Sedimentary Basins
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
A Case Study in HighPerformance MixedLanguage Programming
in Applied Parallel Computing  State of the Art in Scientific Computing (PARA'06), 2007 
Lattice Boltzmann Method and Turbidity Flow Modeling
in MekIT'07 : Fourth National Conference in Computational Mechanics, 2007 
Benchmark of a Tsunami RunUp Code
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
On the Efficiency of Python for HighPerformance Computing: a Case Study Involving Stencil Updates for Partial Differential Equations
in Modeling, Simulation and Optimization of Complex Processes, 2008 
How Do Scientists Develop and Use Scientific Software?
in Software Engineering for Computational Science and Engineering, 2009 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Effect of Tonsilar Position on Cerebrospinal Fluid Flow in the Spinal Subarachnoid Space Studied With Computational Fluid Dynamics
in ASNR  47th Annual Meeting of the American Society of Neuroradiology, 2009 
On the Performance of an Algebraic Multigrid Preconditioner for the Pressure Equation With Highly Discontinuous Media
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Using Cython to Speed Up Numerical Python Programs
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
On the Complexity of Stationary Flow in PatientSpecific Aneurysms
in MekIT'11 Sixth national conference on Computational Mechanics, 2011 
Investigations of Transistional Flows Using Image Based Hemodynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
The Effect of Varying CrossSectional Areas on Cerebrospinal Fluid Flow and Pressure in the Cervical Spine
in MekIT'11. Sixth national conference on Computational Mechanics, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011 
CBC.RANS  a New Flexible, Programmable Software Framework for Computational Fluid Dynamics
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
Uncertainty Quantification of Diffusion in Layered Media by a New Method Based on Polynomial Chaos Expansion
in Seventh National Conference on Computational Mechanics MekIT'13, 2013 
Effect of Oscillatory Cerebrospinal Fluid Pressure on Fluid Movement in the Spinal Cord
in Seventh National Conference on Computational Mechanics (MekIT'13), 2013 
Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
in 4th International Conference on Computational and Mathematical Biomedical Engineering (CMBE), Paris, June 29July 3, 2015 
Towards robust clinical assessment of arterial compliance
in 28th Nordic Seminar on Computational Mechanics, 2015 
Uncertainty quantification and sensitivity analysis for wave propagation models of the arterial systemic circulation
in ICCB 2015, VI International Conference on Computational Bioengineering, Barcelona, 2015, 2015
Conference Proceedings

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
in 21st Nordic Seminar on Computational Mechanics, 2008 
CSF Flow in Chiari I and Syringomyelia  From the Perspective of Fluid Dynamics
in Proceedings of the XIX Symposium Neuroradiologicum, Bologna, Italy, 2010 
Flexible Software Tools for Computational Turbulence
in Proceedings of the 25th Nordic Seminar on Computational Mechanics (NSCM25), 2012 
Stochastic arterial flow simulations
in Proceedings of the 27th Nordic Seminar on Computational Mechanics, 2014 
Effects of parametric uncertainty in blood flow simulations
in Virtual Physiological Human Conference 2014, Trondheim, 2014
Technical Reports

PhD: Simulation of Deformation and Heat Flow in Sedimentary Basins
Simula, 2007 
Extrapolation From a Very Low Number of Computer Experiments
Simula Research Laboratory, 2010
Manuals

UFC Specification and User Manual 1.0
2007 
Combining FEniCS With Your Favorite Software in C, C++, Fortran, Or MATLAB
2013
Talks

Benchmark of a Tsunami RunUp Code
Talk at the MekIT'07: Fourth National Conference on Computational Mechanics, Trondheim, Norway, 2007 
On a Future Software Platform for Demanding MultiScale and MultiPhysics Problems
Talk at SIAM CSE07 Conference, Costa Mesa, CA, Feb. 1923, 2007 
Computational Modeling of Huge Tsunamis From Asteroid Impacts
Invited keynote lecture at the International conference on Computational Science 2007 (ICCS'07), Beijing, China, 2007 
Optimal Coupling in a Multiscale Model
Poster at the Kongsberg Seminar on geology, Kongsberg, Norway, 2007 
A Pseudospectral Fourier Method Applied to an Incompressible TwoFluid Model
Talk at the International Conference on Multiphase Flow, ICMF 2007, Leipzig, Germany, 2007 
Lattice Boltzmann Method and Turbidity Flow Modeling
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow, and Heat Transport in Porous Geological Formations
Talk at the Fourth National Conference on Computational Mechanics (MekIT'07), Trondheim, Norway, 2007 
CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
ParticleBased Methods in the Modelling of Turbidity Currents and Turbidites
Talk at the 33rd IGC Congress in Oslo, 2008 
Numerical Modeling of Turbidity Flow With the Lattice Boltzmann Method
Talk at the Computational Geoscience workshop, 2008 
A Coupled Lattice Boltzmann Model for a Turbulent SandLaden Fluid Flow
Talk at the DSFD conference in Brazil, 2008 
Numerical Python
Four day course at the University of Erlangen, 2008 
Chiari Malformation  the Problem and a Mathematical Approach
Invited talk, Vindern Medical Center, 8th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow in Normal and Chiari Subjects
talk, Seminar at CBC (Simula Research Laboratory), 16th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow Simulations  Normal Subjects and Patients With Chiari I Malformation
talk, Seminar at CBC (Simula Research Laboratory), 31st of October, Oslo, Norway), 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 25th of June, Oslo, Norway., 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 20th of May, Oslo, Norway., 2008 
Experience With Merging Mathematics, Numerical Methods, Physics and Programming From Day 1
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009 
Python for Scientific Computing at SIAM CSE 2009
Article in the SIAM News magazine, 2009 
Techniques for Achieving High Performance in Numerical Python Codes
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009 
Experience With Python in a Major Educational Reform
Minisymposium talk at the SIAM Conference on Computational Science and Engineering, Miami, USA, 2009 
Modeling and Simulation
Invited talk at a Tekna Labor Union seminar, 2009 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
Python As an Important Tool in a Major Science Education Reform
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009 
Cerebrospinal Fluid Flow Investigations With Modelling and Simulation
invited talk at The Chiari Institute, 14th of January, New York, U.S.A., 2009 
Simulating Normal and Abnormal CSF Flow With Idealized Geometries
talk, seminar on cerebrospinal fluid flow, 16th of January, University of Wisconsin, U.S.A., 2009 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Tonsilar Herniation  How Is the CSF Flow Influenced?
Invited talk at Rikshospitalet University Hospital, Oslo, Norway, 5th of June, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
On the Perfermance of an Algebraic Multigrid Preconditioner for the Pressure Equationwith Highly Discontinuous Media
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Using Cython to Speed Up Numerical Python Programs
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Cerebrospinal Fluid (CSF)  Oscillating Flow and Pressure
CBC Workshop on Aerosols: Dispersion, Transport and Effects, Simula, November 10, 2010 
CSF Hydrodynamic in Patients With Syringomyelia and Chiari I Malformations
Annual NUPUS meeting in Freudenstadt, 2010 
From a Physical Problem to Computer Simulations
CBC Workshop on Cerebrospinal Fluid Flow in the Brain and Spinal Canal  Clinical, Experimental and Mathematical Models and Problems, Simula, May 28, 2010 
Computational Modeling of Huge Tsunamis From Asteroid Impacts
Computational Geoscience seminar, 2010 
Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011 
The Finite Element Library FEniCS and Simulation of Blood Flow in Cerebral Aneurysms
Talk at CSB Seminar, University of Stuttgart, 2011 
Computational Cerebral Hemodynamics
The Norwegian Defence Research Establishment, 2011 
Simulation Methodology for Cerebral Blood Flow
Biomedical Simulation Lab, Institute of Biomaterials and Biomedical Engineering at the University of Toronto, 2011 
Direct Numerical Simulation of Transitional Flow in PatientSpecific Intracranial Aneurysms
ASME 2011 Summer Bioengineering Conference, 2011 
Abnormal Flows in the Brain and the Spine: How to Better Understand Diseases by Computations
Talk at the Computational Life Science seminar, University of Oslo, 2011 
Kaos I Hjernen  Ny Innsikt Gjennom Simuleringer
University of Oslo 1day seminar: Realister invaderer helsevesenet, 2011 
Kaos I Hjernen  Ny Innsikt Gjennom Simuleringer
Talk at Fysikkforeningen, 2011 
'Turbulence' in Cerebral Aneurysms
CBC Workshop on Biomechanics, 1718 November, 2011 
Will FEniCS Fly?
FEniCS 12 workshop, 2012 
CSF Flow Dynamics: Effects of Viscosity and Inertia
ANSR 2012, New York, 2012 
Are Zombies a Threat to Mankind?
Invited talk for the opening of RF kjelleren at the University of Oslo, 2012 
Flexible Specification of Large Systems of Nonlinear PDEs
Keynote talk at the 2nd HPC^3 Workshop on HighPerformance Computing, KAUST, SaudiArabia, 2012 
Bringing Flow Simulations to the Clinic
Invited lecture at the Scientific Computing and Imaging Institute (SCI Institute), University of Utah, USA, 2013 
Building Simulation Software for the Next Decade: Tools and Trends
International Workshop on Mantle and Litosphere Dynamics, Klækken hotel, Norway, 2013 
Er Zombier En Trussel Mot Menneskeheten?
Upop aften  Det norske student samfund, 2014 
How to Easily Implement Sophisticated Tailored Algorithms in Computational Turbulence
Department of Mathematics, University of Oxford, UK, 2014 
Code Generation for HighLevel Problem Specification and HPC
London University College, London, UK, 2014 
Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
4th International Conference on Computational and Mathematical Biomedical Engineering, France, 2015 
Towards robust clinical assessment of arterial compliance
28th Nordic Seminar on Computational Mechanics, 2015
Mats G. Larson
Articles in International Journals

Vorticitystrain ResidualBased Turbulence Modelling of the TaylorGreen Vortex
International Journal for Numerical Methods in Fluids, vol. 54, pp. 745—756, 2007, [DOI] 
Adaptive Finite Element Approximation of Multiphysics Problems
Communications in Numerical Methods in Engineering, vol. 24, pp. 505—521, 2007, [DOI] 
A Posteriori Error Estimates for Mixed Finite Element Approximations of Elliptic Problems
Numerische Mathematik, vol. 108, pp. 487—500, 2008 
Adaptive Finite Element Approximation of Multiphysics Problems: a FluidStructure Interaction Model Problem
International Journal for Numerical Methods in Engineering, vol. 84, pp. 1451—1465, 2010 
Blockwise Adaptivity for Time Dependent Problems Based on Coarse Scale Adjoint Solutions
SIAM Journal on Scientific Computing, vol. 32, pp. 2121—2145, 2010 
Convergence Analysis of Finite Element Method Approximations of Joule Heating Problem in Three Spatial Dimensions
BIT Numerical Mathematics, vol. 50, pp. 781—795, 2010, [DOI] 
Residual Based VMS Subgrid Modeling for Vortex Flows
Computer Methods in Applied Mechanics and Engineering, vol. 199, pp. 802—809, 2010 
An Adaptive Finite Element Method for SecondOrder Plate Theory
International Journal for Numerical Methods in Engineering, vol. 81, pp. 584—603, 2010 
A Posteriori Error Estimates for Continuous/discontinuous Galerkin Approximations of the KirchhoffLove Plate
Computer Methods in Applied Mechanics and Engineering, vol. 200, pp. 3289—3295, 2011 
Adaptive Component Mode Synthesis in Linear Elasticity
International Journal for Numerical Methods in Engineering, vol. 86, pp. 829—844, 2011 
A Finite Element Method With Discontinuous Rotations for the MindlinReissner Plate Model
Computer Methods in Applied Mechanics and Engineering, vol. 200, pp. 638—648, 2011 
Energy Norm a Posteriori Error Estimates for Discontinuous Galerkin Approximations of the Linear Elasticity Problem
Computer Methods in Applied Mechanics and Engineering, vol. 200, pp. 3026—3030, 2011 
A Posteriori Error Analysis of Component Mode Synthesis for the Elliptic Eigenvalue Problem
Computer Methods in Applied Mechanics and Engineering, vol. 200, pp. 2840—2847, 2011 
A Posteriori Error Estimates for Mixed Finite Element Approximations of Parabolic Problems
Numerische Mathematik, vol. 118, pp. 33—48, 2011 
An Adaptive Finite Element Splitting Method for the Incompressible NavierStokes Equations
Computer Methods in Applied Mechanics and Engineering, vol. 209212, pp. 54—65, 2012, [DOI] 
Mode Superposition With Submodeling
International Journal for Numerical Methods in Engineering, vol. 90, pp. 739—751, 2012 
Continuous Piecewise Linear Finite Elements for the KirchhoffLove Plate Equation
Numerische Mathematik, vol. 121, pp. 65—97, 2012 
Efficient Implementation of Finite Element Methods on Nonmatching and Overlapping Meshes in Three Dimensions
SIAM Journal on Scientific Computing, vol. 35, pp. C23—C47, 2013, [DOI] 
A High Order Discontinuous Galerkin Nitsche Method With Fictitous Boundary
Numerische Mathematik, vol. 123, pp. 607—628, 2013, [DOI] 
CutFEM: Discretizing Geometry and Partial Differential Equations
International Journal of Numerical Methods in Engineering, vol. 104, pp. 472—501, 2014 
A Stabilized Nitsche Fictitious Domain Method for the Stokes Problem
Journal of Scientific Computing, vol. 61, pp. 604—628, 2014, [DOI] 
Locking Free Quadrilateral Continuous/discontinuous Finite Element Methods for the ReissnerMindlin Plate
Computer Methods in Applied Mechanics and Engineering, vol. 269, pp. 381—393, 2014, [DOI] 
A Stabilized Nitsche Overlapping Mesh Method for the Stokes Problem
Numerische Mathematik, vol. 128, pp. 73—101, 2014, [DOI] 
Variational formulation of curved beams in global coordinates
Computational Mechanics, vol. 53, pp. 611—623, 2014, [DOI] 
Finite element modeling of a linear membrane shell problem using tangential differential calculus
Computer Methods in Applied Mechanics and Engineering, vol. 270, pp. 1 — 14, 2014, [DOI] 
A cut finite element method for a Stokes interface problem
Applied Numerical Mathematics, vol. 85, pp. 90 — 114, 2014, [DOI] 
Adaptive Finite Element Solution of Multiscale PDEODE Systems
Computer Methods in Applied Mechanics and Engineering, vol. 287, pp. 150—171, 2015 
A Nitschebased Cut Finite Element Method for a FluidStructure Interaction Problem
Communications in Applied Mathematics and Computational Science, vol. 10, pp. 97—120, 2015, [DOI] 
Tangential differential calculus and the finite element modeling of a large deformation elastic membrane problem
Computational Mechanics, vol. 56, pp. 87—95, 2015, [DOI] 
Minimal surface computation using a finite element method on an embedded surface
International Journal for Numerical Methods in Engineering, vol. 104, pp. 502—512, 2015, [DOI] 
High order cut finite element methods for the Stokes problem
Advanced Modeling and Simulation in Engineering Sciences, vol. 2, 2015, [DOI] 
Stabilized Finite Element Approximation of the Mean Curvature Vector on Closed Surfaces
SIAM Journal on Numerical Analysis, vol. 53, pp. 1806—1832, 2015, [DOI] 
A stabilized cut finite element method for partial differential equations on surfaces: The LaplaceBeltrami operator
Computer Methods in Applied Mechanics and Engineering, vol. 285, pp. 188—207, 2015, [DOI] 
A posteriori error estimates for continuous/discontinuous Galerkin approximations of the KirchhoffLove buckling problem
Computational Mechanics, vol. 56, pp. 815—827, 2015, [DOI] 
Characteristic cut finite element methods for convection  diffusion problems on time dependent surfaces
Computer Methods in Applied Mechanics and Engineering, vol. 293, pp. 431—461, 2015, [DOI] 
Cut Finite Element Methods on Coupled BulkSurface Problems
Numerische Mathematik, vol. 133, pp. 203—231, 2015, [DOI] 
A cut discontinuous Galerkin method for the Laplace–Beltrami operator
IMA Journal of Numerical Analysis, vol. 37, pp. 138—169, 2016, [DOI]
Books

The Finite Element Method: Theory, Implementation, and Applications
Springer, 2013
Chapters in Books

Error Estimation and Adaptivity
in Encyclopedia of applied and computational mathematics, Edited by , Springer, 2012
Refereed Proceedings

Towards an Implementation of Nitsche's Method on Overlapping Meshes in 3D
in AIP Conference Proceedings (ICNAAM 2010), 2010 
Model Reduction for Thermoelasticity
in Proceedings of the 8th international conference on engineering computation, 2012 
Component Modal Synthesis for Laminar Viscous Incompressible Fluid Flow
in Proceedings of the 8th International Conference on Scientific Computing and Applications, 2012 
Component Mode Synthesis for Laminar Viscous Incompressible Fluid Flow
in Recent Advances in Scientific Computing and Applications, 2013
Talks

Multiscale Modeling of Turbulent Flow
Talk at CBC Workshop on Biomedical Computing, 2007 
Adaptivity and Error Estimation for Multiphysics Problems
Talk at CBC Workshop on Biomedical Computing, 2007 
Can Inverse Problems Tell You the Condition of Your Heart?
Zurich Intelligencer; International Congress on Industrial and Applied Mathematics (ICIAM), SpringerVerlag, 2007 
Cut Finite Element Methods for MultiPhysics Problems (in FEniCS!)
18th European Conference on Mathematics for Industry, 2014 
A High Order DG Cut Finite Element Method for Elliptic Problems
Simula Research Laboratory, 2014 
High order methods on arbitrarily many intersecting meshes: Multimesh
FEF 2017, Rome, 2017 
FEM on arbitrarily many intersecting meshes: Multimesh
European Finite element fair, 2017, Milano, 2017
Paul Roger Leinan
Articles in International Journals

Human Ductus Venosus Velocity Profiles in the First Trimester
Cardiovascular Engineering and Technology, vol. 4, pp. 257—266, 2013, [DOI]
Refereed Proceedings

On Material Modelling of Umbilical Vein
in Fifth National Conference on Computational Mechanics (MekIT´09), 2009 
Initial Study on Material Modeling of Umbilical Veins in Fetal Sheep
in 6th World Congress of Biomechanics, 2010 
A Biomechanical Model for Human Umbilical Veins and Wharton's Jelly
in 8th International Conference on Computational Fluid Dynamics in the Oil & Gas, Metallurgical and Process Industries, 2011
Theses

Biomechanical Modeling of Fetal Veins. the Umbilical Vein and Ductus Venosus Bifurcation
Ph.D. Thesis, Norwegian University of Science and Technology, 2012
Talks

Simulations and Experiments With the BSCC Mechanical Heart Valve Prosthesis
Talk at CBC Workshop on Biomechanics, Trondheim, 2007 
Fluid Structure Interaction Modeling of Pulsations of the Fetal Umbilical Cord
Talk at the 8th Workd Congress on Computational Mechanics, 2008
Pan Li
Articles in International Journals

ThreeDimensional HighResolution Imaging of Cardiac Proteins to Construct Models of Intracellular Ca2+ Signalling
Experimental Physiology, vol. 94, pp. 496—508, 2009, [DOI] 
Intracellular Ca2+ Nonlinear Wave Behaviours in a Three Dimensional Ventricular Cell Model
Physica D: Nonlinear Phenomena, vol. 238, pp. 992—999, 2009, [DOI] 
Computational Modeling of the Initiation and Development of Spontaneous Intracellular Ca2+ Waves in Ventricular Myocytes
Philosophical Transactions of the Royal Society A, vol. 368, pp. 3953—3965, 2010, [DOI] 
On Defining Candidate Drug Characteristics for LongQT
Mathematical Biosciences and Engineering, vol. 8, pp. 861—873, 2011 
Mathematical Models of Cardiac Pacemaking Function
Frontiers in Physics, vol. 1, 2013, [DOI] 
Nonequilibrium reactivation of Na+ current drives early afterdepolarizations in mouse ventricle
Circulation: Arrhythmia and Electrophysiology, vol. 7, pp. 1205—1213, 2014
Refereed Proceedings

Evolution of Intracellular Ca2+ Waves From About 10,000 RyR Clusters: Towards Solving a Computationally Daunting Task
in The Fifth International Conference on Functional Imaging and Modeling of the Heart, 2009
Talks

Antiarrhythmic Drug Identifaction
Presented at the Bidomain Workshop, Graz, Austria, 2009
Glenn Terje Lines
Articles in International Journals

On the Accuracy of Operator Splitting As Applied to Discretized Reaction Diffusion Systems
International Journal of Computer Mathematics, vol. 84, pp. 871—885, 2007 
Optimal Monodomain Approximations of the Bidomain Equations
Applied Mathematics and Computation, vol. 184, pp. 276—290, 2007 
Using Python to Solve Partial Differential Equations
Computing in Science & Engineering, vol. 9, pp. 48—51, 2007 
On the Frequency of Automaticity During Ischemia in Simulations Based on Stochastic Perturbations of the LuoRudy 1 Model
Computers in Biology and Medicine, vol. 38, pp. 1218—1227, 2008 
A Condition for Setting Off Ectopic Waves in Computational Models of Excitable Cells
Mathematical Biosciences, vol. 213, pp. 141—150, 2008, [DOI] 
Stochastic Binding of Ca2+ in the Dyadic Cleft: Continuous Vs. RandomWalk Description of Diffusion.
Biophysical Journal, vol. 94, pp. 4184—4201, 2008, [DOI] 
Synchronizing Computer Simulations With Measurement Data for a Case of Atrial Flutter
Annals of Biomedical Engineering, vol. 37, pp. 1287—1293, 2009 
Adaptive Finite Element Simulation of Ventricular Fibrillation Dynamics
Computing and Visualization in Science, vol. 12, pp. 201—205, 2009 
A Note on a Method for Determining Advantageous Properties of an AntiArrhythmic Drug Based on a Mathematical Model of Cardiac Cells
Mathematical Biosciences, vol. 217, pp. 167—173, 2009, [DOI] 
Numerical Solution of the Bidomain Equations
Philosophical Transactions of the Royal Society A, vol. 367, pp. 1931—1951, 2009 
Control of Ca2+ Release by Action Potential Configuration in Normal and Failing Murine Cardiomyocytes
Biophysical Journal, vol. 99, pp. 1377—1386, 2010 
A Method for Analyzing the Stability of the Resting State for a Model of Pacemaker Cells Surrounded by Stable Cells
Mathematical Biosciences and Engineering, vol. 7, pp. 505—526, 2010 
Existence of Excitation Waves for a Collection of Cardiomyocytes Electrically Coupled to Fibroblasts
Mathematical Biosciences, vol. 230, pp. 79—86, 2011, [DOI] 
Unstable Eigenmodes As Possible Drivers for Cardiac Arrhythmias
Journal of the Royal Society Interface, vol. 8, pp. 1212—6, 2011 
Computing the Stability of SteadyState Solutions of Mathematical Models of the Electrical Activity in the Heart
Mathematical Biosciences and Engineering, vol. 41, pp. 611—618, 2011, [DOI] 
Stability of Two TimeIntegrators for the AlievPanfilov System
International Journal of Numerical Analysis and Modeling, vol. 8, pp. 427—442, 2011 
On Defining Candidate Drug Characteristics for LongQT
Mathematical Biosciences and Engineering, vol. 8, pp. 861—873, 2011 
Instabilities of the Resting State in a Mathematical Model of Calcium Handling in Cardiac Myocytes
Mathematical Biosciences, vol. 236, pp. 97—107, 2012, [DOI] 
A Note on a Possible ProArrhythmic Property of AntiArrhythmic Drugs Aimed at Improving GapJunction Coupling
Biophysical Journal, vol. 102, pp. 231—237, 2012 
An Analysis of the Shock Strength Needed to Achieve Defibrillation in a Simplified Mathematical Model of Cardiac Tissue
International Journal of Numerical Analysis and Modeling, vol. 9, pp. 644—657, 2012 
Slow CalciumDepolarizationCalcium Waves May Initiate Fast Local Depolarization Waves in Ventricular Tissue
Progress in Biophysics and Molecular Biology, vol. 110, pp. 295—304, 2012 
Mathematical Models of Cardiac Pacemaking Function
Frontiers in Physics, vol. 1, 2013, [DOI] 
NS5806 Partially Restores Action Potential Duration But Fails to Ameliorate Calcium Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace, vol. 16, pp. iv46—iv55, 2014 
Towards Simulation of Subcellular Calcium Dynamics at Nanometre Resolution
International Journal of High Performance Computing Applications, vol. 29, pp. 51—63, 2015, [DOI] 
Scalable heterogeneous CPUGPU computations for unstructured tetrahedral meshes
IEEE Micro, vol. 35, pp. 6—15, 2015, [DOI] 
Simple T wave metrics may better predict early ischemia as compared to ST segment
IEEE Transactions on Biomedical Engineering, 2016, [DOI] 
Computing rates of Markov models of voltagegated ion channels by inverting partial differential equations governing the probability density functions of the conducting and nonconducting states
Mathematical Biosciences, vol. 277, pp. 126—135, 2016 
Studying dyadic structurefunction relationships: a review of current modeling approaches and new insights into Ca2+ (mis)handling
Clinical Medicine Insights: Cardiology, vol. 11, pp. 1—11, 2017, [DOI] 
An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Books

Computing characterizations of drugs for ion channels and receptors using Markov models
Springer, 2016
Chapters in Books

Computer Simulations of the Heart
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 259—276, 2009
Talks

Cardiac Computing at Simula
Talk at CBC Workshop on Biomedical Computing, 2007 
Overview of the Cardiac Computations Project
Talk at CBC, Seminar on Electrophysiology Modeling, 2007 
Stochastic Binding of Ca2+ Ions in the Dyadic Cleft Continuous Vs Random Walk Description of Diffusion
Presentation at ICIAM 07, 2007 
Stochastic Binding of Ca2+ Ions in the Dyadic Cleft Continuous Vs Random Walk Description of Diffusion
Poster presentation at 5th Annual CHFR Symposium, 2007 
Modelling the Mesoscopic Length Scale of EC Coupling: the Diadic Cleft
Invited talk at 'European Conference on Mathematical and Theoretical Biology', 2008 
Antiarrhythmic Drug Identifaction
Presented at the Bidomain Workshop, Graz, Austria, 2009 
Elements of Scientific Computing
3day intensive course given at National University of Defence Technology, China, October 1618, 2012 
Observability of Ischemia and the Need for Patient Specific Geometrical Models in Inverse ECG
Computing in Cardiology, Zaragoza, Spain, 2013
Posters

A Stochastic Model of the Ryanodine Receptor Featuring Coupled Gating and Competitive Binding of Luminal and Cytosolic Ca2+ and Mg2+
2011 
NS5806 Partially Restores APD But Fails to Ameliorate Ca2+ Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace 2014, 2013 
Ca2+Transient Dysfunction and Ion Channel Therapy: What Can We Gather From a Computational Model of Canine Heart Failure?
, 2013
Public Outreach

SupercomputingEnabled Study of Subcellular Calcium Dynamics
2014
Svein Linge
Articles in International Journals

On the Frequency of Automaticity During Ischemia in Simulations Based on Stochastic Perturbations of the LuoRudy 1 Model
Computers in Biology and Medicine, vol. 38, pp. 1218—1227, 2008 
Synchronizing Computer Simulations With Measurement Data for a Case of Atrial Flutter
Annals of Biomedical Engineering, vol. 37, pp. 1287—1293, 2009 
Numerical Solution of the Bidomain Equations
Philosophical Transactions of the Royal Society A, vol. 367, pp. 1931—1951, 2009 
CSF Flow Dynamics at the CranioVertebral Junction Studied With an Idealized Model of the Subarachnoid Space and Computational Flow Analysis
American Journal of Neuroradiology, vol. 31, pp. 185—192, 2009 
Characterization of Cyclical CSF Flow in the Foramen Magnum and Upper Cervical Spinal Canal With MR Flow Imaging and Computational Fluid Dynamics
American Journal of Neuroradiology, vol. 31, pp. 997—1002, 2010, [DOI] 
Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
PatientSpecific 3D Simulation of Cyclic CSF Flow at the CranioCervical Region
American Journal of Neuroradiology, vol. 33, pp. 1756—1762, 2012 
Estimation of CSF Flow Resistance in the Upper Cervical Spine
The Neuroradiology Journal, vol. 3, pp. 49—53, 2013 
Simulating CSF Flow Dynamics in the Normal and the Chiari I Subarachnoid Space During Rest and Exertion
American Journal of Neuroradiology, vol. 34, pp. 41—15, 2013 
Effect of CranioVertebral Decompression on CSF Dynamics in Chiari I Malformation Studied With Computational Fluid Dynamics
Journal of Neurosurgery, vol. 21, pp. 559—564, 2014
Books

Programming for Computations  A gentle Introduction to Numerical Simulations with MATLAB/Octave
Springer, 2016 
Programming for Computations  A Gentle Introduction to Numerical Simulations with Python
Springer, 2016
Chapters in Books

Cerebrospinal Fluid Flow
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 455—470, 2012
Refereed Proceedings

Effect of Tonsilar Position on Cerebrospinal Fluid Flow in the Spinal Subarachnoid Space Studied With Computational Fluid Dynamics
in ASNR  47th Annual Meeting of the American Society of Neuroradiology, 2009 
Cerebrospinal Fluid Flow Characteristics at Double Heart Rate
in Neuroradiology, 53 (Suppl. 1), S33, 35th European Soc of Neuroradiology ann. meeting, Antwerpen, Belgium, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011
Conference Proceedings

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
in 21st Nordic Seminar on Computational Mechanics, 2008
Talks

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Chiari Malformation  the Problem and a Mathematical Approach
Invited talk, Vindern Medical Center, 8th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow in Normal and Chiari Subjects
talk, Seminar at CBC (Simula Research Laboratory), 16th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow Simulations  Normal Subjects and Patients With Chiari I Malformation
talk, Seminar at CBC (Simula Research Laboratory), 31st of October, Oslo, Norway), 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 25th of June, Oslo, Norway., 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 20th of May, Oslo, Norway., 2008 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
Cerebrospinal Fluid Flow Investigations With Modelling and Simulation
invited talk at The Chiari Institute, 14th of January, New York, U.S.A., 2009 
Simulating Normal and Abnormal CSF Flow With Idealized Geometries
talk, seminar on cerebrospinal fluid flow, 16th of January, University of Wisconsin, U.S.A., 2009 
Tonsilar Herniation  How Is the CSF Flow Influenced?
Invited talk at Rikshospitalet University Hospital, Oslo, Norway, 5th of June, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011
Malin Ljungberg
Talks

Requirements on PDE Solver Componentsfor Multiphysics Simulation
Talk at Works on Software issues in Computational Science and Engineering, 2007
Anders Logg
Articles in International Journals

Efficient Compilation of a Class of Variational Forms
ACM Transactions on Mathematical Software, vol. 33, 2007 
Automating the Finite Element Method
Archives of Computational Methods in Engineering, vol. 14, pp. 93—138, 2007 
Algorithms and Data Structures for MultiAdaptive TimeStepping
ACM Transactions on Mathematical Software, vol. 35, pp. 1—24, 2008 
Benchmarking DomainSpecific Compiler Optimizations for Variational Forms
ACM Transactions on Mathematical Software, vol. 35, pp. 1—18, 2008 
Automated Code Generation for Discontinuous Galerkin Methods
SIAM Journal on Scientific Computing, vol. 31, pp. 849—864, 2008 
Unified Framework for Finite Element Assembly
International Journal of Computational Science and Engineering, vol. 4, pp. 231—244, 2009 
Efficient Assembly of H(div) and H(curl) Conforming Finite Elements
SIAM Journal on Scientific Computing, vol. 36, pp. 4130—4151, 2009 
Efficient Representation of Computational Meshes
International Journal of Computational Science and Engineering, vol. 4, pp. 283—295, 2009 
DOLFIN: Automated Finite Element Computing
ACM Transactions on Mathematical Software, vol. 37, 2010 
An Adaptive Finite Element Splitting Method for the Incompressible NavierStokes Equations
Computer Methods in Applied Mechanics and Engineering, vol. 209212, pp. 54—65, 2012, [DOI] 
Efficient Implementation of Finite Element Methods on Nonmatching and Overlapping Meshes in Three Dimensions
SIAM Journal on Scientific Computing, vol. 35, pp. C23—C47, 2013, [DOI] 
Automated GoalOriented Error Control I: Stationary Variational Problems
SIAM Journal on Scientific Computing, vol. 35, pp. 173—193, 2013 
Unified Form Language: a DomainSpecific Language for Weak Formulations of Partial Differential Equations
ACM Transactions on Mathematical Software, vol. 40, 2014 
A Stabilized Nitsche Fictitious Domain Method for the Stokes Problem
Journal of Scientific Computing, vol. 61, pp. 604—628, 2014, [DOI] 
A Stabilized Nitsche Overlapping Mesh Method for the Stokes Problem
Numerische Mathematik, vol. 128, pp. 73—101, 2014, [DOI] 
Periodic table of the Finite Elements
SIAM News, vol. 47, 2014 
A Nitschebased Cut Finite Element Method for a FluidStructure Interaction Problem
Communications in Applied Mathematics and Computational Science, vol. 10, pp. 97—120, 2015, [DOI] 
The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
High order cut finite element methods for the Stokes problem
Advanced Modeling and Simulation in Engineering Sciences, vol. 2, 2015, [DOI] 
A posteriori error analysis of roundoff errors in the numerical solution of ordinary differential equations
Numerical Algorithms, vol. 76, 2017, [DOI]
Edited Books

Automated Solution of Differential Equations by the Finite Element Method
Springer, 2012 
Proceedings of the 26th Nordic Seminar on Computational Machanics
Simula Research Laboratory, 2013
Chapters in Books

A Hybrid Approach to Efficient Finite Element Code Development
in Petascale Computing  Algorithms and Applications, Edited by , Chapman and Hall, 2007 
Att Lösa En Differentialekvation
in Människor och matematik. Läsebok för nyfikna, Edited by , Nationellt centrum för matematikutbildning, NCM, pp. 95—110, 2008 
Past and Future Perspectives on Scientific Software
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 321—362, 2009 
FErari: an Optimizing Compiler for Variational Forms
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 235—243, 2012 
UFC: a Finite Element Code Generation Interface
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 279—298, 2012 
Finite Element Variational Forms
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 129—136, 2012 
DOLFIN: a C++/Python Finite Element Library
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 173—225, 2012 
Common and Unusual Finite Elements
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 91—116, 2012 
Finite Element Assembly
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 137—142, 2012 
Tensor Representation of Finite Element Variational Forms
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 157—167, 2012 
Discrete Optimization of Finite Element Matrix Evaluation
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 161—168, 2012 
A Comparison of Some Common Finite Element Schemes for the Incompressible NavierStokes Equations
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 395—418, 2012 
Computational Hemodynamics
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 439—454, 2012 
The Finite Element Method
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 73—90, 2012 
FFC: the FEniCS Form Compiler
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 223—234, 2012
Refereed Proceedings

Efficient Representation of Computational Meshes
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
Multiscale Modeling of the Acoustic Properties of Lung Parenchyma
in Modelling of the Respiratory System Biomechanical, Computational and Mathematical Aspects, 2008 
Simulating Heart Valve Dynamics in FEniCS
in MekIT´09. Fifth National Conference on Computational Mechanics, 2009 
Exploring Automated Adaptivity and Error Control
in AIP Conference Proceedings, 2010 
Towards an Implementation of Nitsche's Method on Overlapping Meshes in 3D
in AIP Conference Proceedings (ICNAAM 2010), 2010 
A Reference Solution for the Lorenz System on [0, 1000]
in AIP Conference Proceedings, 2010 
Building Flexible User Interfaces for Solving PDEs
in AIP Conference Proceedings, 2010 
A Newton Method for FluidStructure Interaction Using Full Jacobians Based on Automatic Form Differentiation
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Automatically Generated Solvers for Variational Formulations of TimeDependent Partial Differential Equations
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Quantifying the Computability of the Lorenz System
in Proceedings of the VI International Conference on Adaptive Modeling and Simulation (ADMOS 2013), 2013
Conference Proceedings

Automated Solution of Differential Equations
in ICIAM 2007: 6th International Congress on Industrial and Applied Mathematics, 2007 
Collaborative Computational Frameworks and the Growth Problem
in The mathematics of growth and remodelling of soft biological tissues, 2008 
Automated Computational Modelling for Solid Mechanics
in IUTAM Symposium on Theoretical, Modelling and Computational Aspects of Inelastic Media, 2008 
An Overview of the FEniCS Project
in 21st Nordic Seminar on Computational Mechanics, 2008
Manuals

DOLFIN User Manual
2007 
FFC User Manual
2007 
UFC Specification and User Manual 1.0
2007 
UFL Specification and User Manual
2009
Talks

Efficient Representation of Computational Meshes
Talk at MekIT'07, Trondheim, 20070523, 2007 
Software Components for Solving PDEs
Talk at Modelling and Computation of Biomedical Processess Workshop, Simula Oslo, 20070612, 2007 
Finite Element Code Generation: Simplicity, Generality, Efficiency
Talk at Software Issues in Computational Science and Engineering (SCSE 2007), Uppsala, 20070811, 2007 
Activities at Simula: FEniCS and the Center for Biomedical Computing
Computational and Applied Mathematics Seminar, Chalmers Göteborg, 20070926, 2007 
Automated Solution of Differential Equations
Talk at 6th International Congress on Industrial and Applied Mathematics (ICIAM 2007), Zürich, 20070718, 2007 
A Symbolic Engine for Finite Element Exterior Calculus
Talk at the European Finite Element Fair 2008, Chalmers, Gøteborg, 30th of May, 2008 
FSI Development at CBC
Invited speaker at the Workshop on FSI for Biomedical Applications, Trondheim, 8th of September, 2008 
The FEniCS Project
Inviteted speaker at the Workshop on Data Structures for Finite Element and Finite Volume Computations, Freie Universität Berlin, 29th of February, 2008 
JustinTime Compilation of Finite Element Variational Forms
Talk at the Finite Element Circus and Rodeo, Louisiana State University, Baton Rogue, USA, 7th of March, 2008 
FEniCS Tutorial
Talk at CBC Seminar, Oslo, 6th of November, 2008 
A Symbolic Engine for Finite Element Exterior Calculus
Talk at the Workshop on Automating the Development of Scientific Computing Software (FEniCS'08), Lousiana State University, Baton Rogue, USA, 5th of March, 2008 
Developing Flow Solver Methodology for Patientspecific Simulation of Hemodynamics
Talk at Workshop on Finite Element Methods for Fluids and FluidStructure Interaction, June 5, 2008 
FEniCS: Automated Computing
Workshop on Computational Fluid Dynamics, Simula Research Laboratory, Oslo, 20090504, 2009 
Introduction to FEniCS'09
Talk at FEniCS'09, Simula Research Laboratory, Oslo, 20090611, 2009 
Cerebral Blood Flow
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009, 2009 
Simulating the Heart Valve Dynamics in FEniCS
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Automatic Code Generation and the FEniCS Project
Talk at Opportunities and Challenges in Computational Geodynamics, Caltech, 20090330, 2009 
Automated Finite Element Discretization
Talk at Workshop on Compatible and Innovative Discretizations for Partial Differential Equations, Oslo, 20090618, 2009 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
Parallel Data Structures and Algorithms in DOLFIN
Talk at HPC Workshop, Simula Research Laboratory, Oslo, 20090616, 2009 
Simulation Methodology for Bioflows
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, May 05, 2009 
PatientSpecific Hemodynamics in FEniCS
Invited talk at the minisymposium on Computational Vascular and Cardiovascular Mechanics at USNCCM 2009, 2009 
PatientSpecific Hemodynamics in FEniCS
Presentation at the FEniCS 09 Workshop, 2009 
DOLFIN: Automated Finite Element Computing
Talk at ENUMATH'09, Uppsala, 20090703, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
Implementation of FEM Assembling in DOLFIN
AC/DC seminar series, 2010 
FEniCS: Automated Scientific Computing
8th International Conference of Numerical Analysis and Applied Mathematics (ICNAAM), Rhodes, Greece, September 1925, 2010 
Nya Verktyg, Nya Möjligheter
Sveriges matematiklärarförening (SMaL), 2010 
FEniCS 1.0 (?)
FEniCS'10, KTH, Stockholm, 2010 
Automated GoalOriented Error Control for Stationary Variational Problems
Talk at FEniCS'10, KTH Royal Institute of Technology, Stockholm, 2010 
Automated GoalOriented Error Control for Stationary Variational Problems
Presentation at the European Finite Element Fair 2010, University of Warwick, 2010 
A Framework for Automated GoalOriented Error Control
Talk at BIT 50  Trends in Numerical Computing, 2010 
Automated Scientific Computing
23rd Chemnitz FEM Symposium, 2010 
Automated Scientific Computing
Docentföreläsning, Chalmers University of Technology, 2010 
A Reference Solution for the Lorenz System on [0, 1000]
8th International Conference of Numerical Analysis and Applied Mathematics (ICNAAM), Rhodes, Greece, September 1925, 2010 
Automated GoalOriented Error Control
ChinaNorwaySweden Workshop on Computational Mathematics, 2010 
Automated GoalOriented Error Control With Applications to Fluid Flow
Talk at CBC Workshop on Cerebral Blood Flow and Stroke  Clinical, Experimental and Mathematical Models and Problems, 2010 
Automated GoalOriented Error Control With Applications to Nonlinear Elasticity
Talk at DSPDEs 2010  Emerging Topics in Dynamical Systems and Partial Differential Equations, Barcelona, 2010 
Solving Poisson's Equation With DOLFIN 0.2.11 (2002): a Study of the Portability of Scientific Codes Across the Time Domain
Talk at Biocomp Seminar, Simula Research Laboratory, 20110928, 2011 
Adaptive Finite Element Methods for FluidStructure Interaction and Incompressible Flow
Talk at FEniCS'11 / Red Raider Minisymposium 2011, Texas Tech University, Lubbock, 20111103, 2011 
Adaptive Finite Element Methods for FluidStructure Interaction and Incompressible Flow
Talk at Simula/NTNU Workshop, Simula Research Laboratory, 20111117, 2011 
The FEniCS Project
Talk at EuroSciPy 2011 / Python in Physics, Ecole normale supérieure, Paris, 20110809, 2011 
The FEniCS Project
Workshop on Multiscale Problems and Methods, Simula Research Laboratory, 20110617, 2011 
The FEniCS Project
Talk at NOTUR 2011, University of Oslo, 20110523, 2011 
The FEniCS Project
Talk at Det Norske Veritas 20110511, 2011 
The FEniCS Project  Organization, Practices, Maintenance and Distribution
CBC seminar series, 2013 
CCFEM implementation in FEniCS
Simula multiphysics workshop, 2014 
Automated Solution of Differential Equations
Computer science and engineering seminar, Chalmers University of Technology, Gothenburg, Sweden, 2014 
A Finite Element method for the EinsteinVlasov system
Biocomp lunch seminar, Simula, Oslo, 2014 
Periodic table of the Finite Elements (part I)
Computational and Applied Mathematics seminar, Chalmers University of Technology, Gothenburg, Sweden, 2014 
Automated Solution of Differential Equations
Hyperfit seminar, University of Copnehagen, Denmark, 2014 
Periodic table of the Finite Elements (part II)
Computational and Applied Mathematics seminar, Chalmers University of Technology, Gothenburg, Sweden, 2014 
Periodic table of the Finite Elements (part III)
Computational and Applied Mathematics seminar, Chalmers University of Technology, Gothenburg, Sweden, 2014 
Multimesh FEM in FEniCS
FEniCS'14 Workshop, University of Chicago center in Paris, France, 2014 
Automated Solution of Differential Equations
Svenska matematikersamfunnets høstmøte, 2014 
Periodic table of the Finite Elements
Biocomp lunch seminar, Simula, Oslo, 2014 
Towards a Unified Framework for Automated a Posteriori Error Estimation and Adaptivity in SpaceTime
SIAM CSE, Salt Lake City, USA, 2015 
Towards an Adaptive EinsteinVlasov Solver
Oslo, Simula Research Laboratory, 2015 
High order methods on arbitrarily many intersecting meshes: Multimesh
FEF 2017, Rome, 2017 
FEM on arbitrarily many intersecting meshes: Multimesh
European Finite element fair, 2017, Milano, 2017
Posters

FEniCS: Sustainable Software Development Practices
2017
Public Outreach

Vad går at berekna, vad går inte? Om fraktaler  matematiske fantasiskapelser  och kaos
2014
Ralph Lorentzen
Technical Reports

Extrapolation From a Very Low Number of Computer Experiments
Simula Research Laboratory, 2010 
Finding the Set of Measurements Necessary to Reveal the State of a Static System
Simula Research Laboratory, 2011
Ola Marius Lysaker
Articles in International Journals

A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
On the Possibility for Computing the Transmembrane Potential in the Heart With a One Shot Method; an Inverse Problem
Mathematical Biosciences, vol. 210, pp. 523—553, 2007 
On the Use of the Resting Potential and Level Set Methods for Identifying Ischemic Heart Disease; an Inverse Problem
Journal of Computational Physics, vol. 220, pp. 772—790, 2007 
Level Set Method for Positron Emission Tomography
International Journal of Biomedical Imaging, pp. 1—15, 2007 
A Computationally Efficient Method for Determining the Size and Location of Myocardial Ischemia
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 263—272, 2009 
Computing Ischemic Regions in the Heart With the Bidomain Model; First Steps Towards Validation
IEEE Transactions on Medical Imaging, vol. 32, pp. 1085—1096, 2013
Edited Books

Scale Space and Variational Methods in Computer Vision
Springer, 2009
Chapters in Books

Can ECG Recordings and Mathematics Tell the Condition of Your Heart?
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 287—319, 2009
Refereed Proceedings

Mathematical Based Imaging of Regional Ischemia
in World Congress on Medical Physics and Biomedical Engineering, 2009 
On the Use of the Bidomain Model for Computing the Position and Size of Ischemic Regions; a Validation Study
in Computing in Cardiology, 2012 
Computing Ischemic Regions in the Heart: on the Use of Internal Electrodes
in Computing in Cardiology Conference (CinC), 2013 
Bidomain Simulations of Subendocardial Ischemia: the Forward and Inverse Problems
in Computing in Cardiology Conference, 2014
Talks

Can Inverse Problems Tell You the Condition of Your Heart?
Zurich Intelligencer; International Congress on Industrial and Applied Mathematics (ICIAM), SpringerVerlag, 2007 
PDE Methods for Identifying Ischemic Heart Disease
Presented at the 6th International Congress on Industrial and Applied Mathematics, 2007 
On the Use of Computer Simulations for Identifying Ischemic Heart Disease; Theoretical and Practical Aspects
Presented at the workshop Mathematics in Medicine/Biology, Centre of Mathematics for Applications, Department of Mathematics, University of Oslo, 2008 
Computer Simulations for Identifying Ischemic Heart Disease; a Validation Study
Presented at the BBGMedViz seminar at the Department of Mathematics, University of Bergen, 2008 
Theoretical and Practical Aspects of the Inverse Problem of Electrocardiography
Presented at Institut für Mathematik und Wissenschaftliches Rechnen, Karl Franzes Universität in Graz, Austria. Also presented at Institut für Numerische und Angewandte Mathematik, Westfälische WilhelmsUniversität Münster, Germany, 2008 
Theoretical and Practical Aspects of the Inverse Problem of Electrocardiography
Presented at the Fourth International Conference Inverse Problems: Modeling and Simulation, Turkey, 2008 
The Inverse Problem of Identifying Ischemic Heart Disease
Presented at the annual meeting of European Cardiac Simulation Group, Bologna, Italy, 2008 
Modelling, Mathematical Properties and Validation of the Inverse Ischemia Problem
Presented at the Bidomain Workshop, Graz, Austria, 2009 
The Inverse Ischemia Problem; Mathematical Models and Validation
Presented at the Applied Inverse Problems conference, Vienna, Austria, 2009 
Theoretical and Practical Aspects of the Inverse Ischemia Problem
Presented at Karlsruhe Institute of Technology, Germany, 2010 
Computing Ischemic Regions in the Heart: on the Use of Internal Electrodes
Computing in Cardiology, 2013 
Observability of Ischemia and the Need for Patient Specific Geometrical Models in Inverse ECG
Computing in Cardiology, Zaragoza, Spain, 2013
Alf Emil Løvgren
Articles in International Journals

Global C^1 Maps on General Domains
Mathematical Models and Methods in Applied Sciences (M3AS), vol. 19, pp. 803—832, 2009, [DOI] 
CSF Flow Dynamics at the CranioVertebral Junction Studied With an Idealized Model of the Subarachnoid Space and Computational Flow Analysis
American Journal of Neuroradiology, vol. 31, pp. 185—192, 2009 
Characterization of Cyclical CSF Flow in the Foramen Magnum and Upper Cervical Spinal Canal With MR Flow Imaging and Computational Fluid Dynamics
American Journal of Neuroradiology, vol. 31, pp. 997—1002, 2010, [DOI] 
Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
Stabilized Reduced Basis Approximation of Incompressible ThreeDimensional NavierStokes Equations in Parametrized Deformed Domains
Journal of Scientific Computing, vol. 50, pp. 198—212, 2012, [DOI]
Chapters in Books

The Reduced Basis Element Method for Fluid Flows
in Analysis and Simulation of Fluid Dynamics, Edited by , Birkhäuser, pp. 129—154, 2007 
Cerebrospinal Fluid Flow
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 455—470, 2012
Refereed Proceedings

Effect of Tonsilar Position on Cerebrospinal Fluid Flow in the Spinal Subarachnoid Space Studied With Computational Fluid Dynamics
in ASNR  47th Annual Meeting of the American Society of Neuroradiology, 2009 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011
Conference Proceedings

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
in 21st Nordic Seminar on Computational Mechanics, 2008
Talks

Reduced Basis Modeling of Complex Flow Systems
Invited talk at the Modelling and Scientific Computing group at EPFL, Switzerland, November, 2007. Also presented at the workshop on Modelling and Computation of Biomedical Processes at CBC, Simula, June 714, 2007 
CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Chiari Malformation  the Problem and a Mathematical Approach
Invited talk, Vindern Medical Center, 8th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow in Normal and Chiari Subjects
talk, Seminar at CBC (Simula Research Laboratory), 16th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow Simulations  Normal Subjects and Patients With Chiari I Malformation
talk, Seminar at CBC (Simula Research Laboratory), 31st of October, Oslo, Norway), 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 25th of June, Oslo, Norway., 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 20th of May, Oslo, Norway., 2008 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
Cerebrospinal Fluid Flow Investigations With Modelling and Simulation
invited talk at The Chiari Institute, 14th of January, New York, U.S.A., 2009 
Simulating Normal and Abnormal CSF Flow With Idealized Geometries
talk, seminar on cerebrospinal fluid flow, 16th of January, University of Wisconsin, U.S.A., 2009 
RealTime Flow Simulation
Invited talk at The Chiari Institute, New York, U.S.A., January 14th, 2009 
RealTime Computation of CSF Flow
Invited talk at a seminar for cerebrospinal fluid flow, University of Wisconsin, Madison, U.S.A., January 16th, 2009 
Tonsilar Herniation  How Is the CSF Flow Influenced?
Invited talk at Rikshospitalet University Hospital, Oslo, Norway, 5th of June, 2009 
The Reduced Basis Element Method: OfflineOnline Decomposition in the Nonconforming, Nonaffine Case
Invited talk at the reduced basis minisymposium at ICOSAHOM 09, Trondheim, Norway, June 2226, 2009 
The Spectral Element Method Used to Assess the Quality of a Deformed Mesh
contributed talk at ICOSAHOM 09, Trondheim, Norway, June 2226, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
Stabilized Reduced Basis Approximation of the NavierStokes Equations in Deformed Domains
Contributed talk at the workshop on Model Reduction of Parametrized Systems, Münster, Germany, Sept. 1618, 2009
Mary C. MacLachlan
Articles in International Journals

A Comparison of NonStandard Solvers for ODEs Describing Cellular Reactions in the Heart
Computer Methods in Biomechanics and Biomedical Engineering, vol. 10, pp. 317—326, 2007 
A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
Synchronizing Computer Simulations With Measurement Data for a Case of Atrial Flutter
Annals of Biomedical Engineering, vol. 37, pp. 1287—1293, 2009
Talks

Simulation of Atrial Arrhytmias
Talk at CBC, Seminar on Electrophysiology Modeling, Simula, 2007
Molly Maleckar
Articles in International Journals

Mathematical Simulations of LigandGated and Specific CellType Effects in the Human Atrium
Progress in Biophysics and Molecular Biology, vol. 98, pp. 161—70, 2008 
Polarity Reversal Lowers Activation Time During Diastolic Field Stimulation of the Rabbit Ventricles: Insight Into Mechanisms
American Journal of Physiology  Heart and Circulatory Physiology, vol. 295, pp. H1626—H1633, 2008 
K+ Current Changes Account for the Rate Dependence of the Action Potential in the Human Atrial Myocyte
American Journal of Physiology  Heart and Circulatory Physiology, vol. 297, pp. 1398—1410, 2009 
Susceptibility to Reentry in the Infarcted Heart Depends on the Active Fibroblast Density
Biophysical Journal, vol. 110, pp. 1307—15, 2011 
Existence of Excitation Waves for a Collection of Cardiomyocytes Electrically Coupled to Fibroblasts
Mathematical Biosciences, vol. 230, pp. 79—86, 2011, [DOI] 
Unstable Eigenmodes As Possible Drivers for Cardiac Arrhythmias
Journal of the Royal Society Interface, vol. 8, pp. 1212—6, 2011 
NVersion Benchmark Evaluation of Cardiac Tissue Electrophysiology Simulators
Philosophical Transactions of the Royal Society A, vol. 369, pp. 4331—51, 2011, [DOI] 
A Note on a Possible ProArrhythmic Property of AntiArrhythmic Drugs Aimed at Improving GapJunction Coupling
Biophysical Journal, vol. 102, pp. 231—237, 2012 
An Analysis of the Shock Strength Needed to Achieve Defibrillation in a Simplified Mathematical Model of Cardiac Tissue
International Journal of Numerical Analysis and Modeling, vol. 9, pp. 644—657, 2012 
Slow CalciumDepolarizationCalcium Waves May Initiate Fast Local Depolarization Waves in Ventricular Tissue
Progress in Biophysics and Molecular Biology, vol. 110, pp. 295—304, 2012 
Ca(2+) Entry Through TRPC Channels Regulates Fibroblast Biology in Chronic Atrial Fibrillation
Circulation, vol. 126, pp. 2039—2041, 2012 
Mathematical Models of Cardiac Pacemaking Function
Frontiers in Physics, vol. 1, 2013, [DOI] 
Benchmarking Electrophysiological Models of Human Atrial Myocytes
Frontiers in Computational Physiology and Medicine, vol. 3, 2013 
NS5806 Partially Restores Action Potential Duration But Fails to Ameliorate Calcium Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace, vol. 16, pp. iv46—iv55, 2014 
Variable TTubule Organization and Ca2+ Homeostasis Across the Atria
Heart and Circulatory Physiology, vol. 307, pp. H609—H620, 2014 
In Silico Screening of the Key Cellular Remodeling Targets in Chronic Atrial Fibrillation
PLoS Computational Biology, vol. 10(5), 2014 
Investigations of the NaVβ1b Sodium Channel Subunit in Human Ventricle; Functional Characterization of the H162P Brugada Syndrome Mutant
Heart and Circulatory Physiology, vol. 306, pp. H1204—H1212, 2014 
Na+ Current Expression in Human Atrial Myofibroblasts: Its Identity and Functional Consequences
Frontiers in Physiology, vol. 5, pp. 275, 2014 
Simple T wave metrics may better predict early ischemia as compared to ST segment
IEEE Transactions on Biomedical Engineering, 2016, [DOI] 
cbcbeat: an adjointenabled framework for computational cardiac electrophysiology
Journal of Open Source Software, 2017, [DOI] 
Adjointbased estimation of cardiac activation times
International Journal for Numerical Methods in Biomedical Engineering, 2017
Refereed Proceedings

Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythmogenic cardiomyopathy
in EHealth and Bioengineering Conference (EHB), 2015 
From MR image to patientspecific simulation and populationbased analysis:Tutorial for an openly available imageprocessing pipeline
in MICCAI Workshop on Statistical Atlases and Cardiac Models of the Heart, 2016 
A multiple kernel learning framework to investigate the relationship between ventricular fibrillation and first myocardial infarction
in Functional Imaging and Modelling of the Heart, 2017
Talks

Coupling of Human Atrial Myocytes and Myofibroblasts Can Lead to Conduction Disturbances
HRS Scientific Sessions 2008, 2008 
Electrotonic Coupling Between Human Atrial Myocytes and Fibroblasts Alters Excitability and Repolarization
GRC Conference 2009  Cardiac Arrhythmia Mechanisms, 2009 
Right Through the Heart: Perspectives and Problems
CBC Workshop, Right Through the Heart: Snapshots of Current and Future Research in Cardiac Modeling, 2010 
Divergent Action Potential Morphology in Human Atrial Cells Vs. Tissue: Underlying Ionic Mechanisms
Computing in Cardiology conference, 2012 
Calcium Buffering in Human Atrial Myocytes
CaMoUCSD Workshop, San Diego, USA, 2012 
Towards Modeling Arrhythmogenic Cardiomyopathy  Can Simulation Shed Light on a Complex Disease Process?
ardiac Physiome Workshop, San Diego, 2012 
Action Potential Repolarisation in Healthy and Fibrillating Human Atria: Contribution of Small Conductance CalciumActivated Potassium Channels
Conference of the Scandinavian Physiological Society, 2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
VPH 2014, Trondheim, Norway, 2014 
Electrophysiology and advanced simulation techniques focused on atrial fibrillation
Annual Meeting of the Scandinavian Physiological Society, 2014 
How many ionic models do we need for modelling of the atria?
Atrial Signals 2015, 2015 
Putting the pieces together: towards supplementing sparse clinical data with multi physics simulation
Foundation Teofilo Rossi di Montelera Forum 2015, 2015
Posters

Effects of FibroblastMyocyte Coupling in the Infarcted Rabbit Heart
Heart Rhythm, 2009 
Divergent Action Potential Morphology in Human Atrial Cells Vs. Tissue: Underlying Ionic Mechanisms
2012 
NS5806 Partially Restores APD But Fails to Ameliorate Ca2+ Transient Dysfunction in a Computational Model of Canine Heart Failure
Europace 2014, 2013 
Ca2+Transient Dysfunction and Ion Channel Therapy: What Can We Gather From a Computational Model of Canine Heart Failure?
, 2013 
Mechanisms Promoting Chronic Atrial Fibrillation: Role of Remodelled Intracellular Calcium Handling and Cellular Hypertrophy
2013 
The Controversial Late INa in Human Atrial Myocytes: a Computational Analysis of Ranolazine's Effects
2013 
Action Potential Repolarisation in Healthy and Fibrillating Human Atria: Contribution of Small Conductance CalciumActivated Potassium Channels
2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Biophysical Society 58th Annual Meeting, 2014 
Localization and not extent of fibrofatty infiltration is the primary factor determining conduction disturbance in a computational model of arrhythomogenic cardiomyopathy
Copenhagen Meeting on Cardiac Arrhythmia, May 1922, 2014, 2014 
A datadriven framework uncovers arrhythmogenic mechanisms in a 'functionally calibrated' population of models
2017
KentAndre Mardal
Articles in International Journals

An Order Optimal Solver for the Discretized Bidomain Equations
Numerical Linear Algebra with Applications, vol. 14, pp. 83—98, 2007 
Order Optimal Preconditioners for Implicit RungeKutta Schemes Applied to Parabolic PDE's
SIAM Journal on Scientific Computing, vol. 29, pp. 361—375, 2007 
Using Python to Solve Partial Differential Equations
Computing in Science & Engineering, vol. 9, pp. 48—51, 2007 
Computation of Hemodynamics in the Circle of Willis
Stroke, vol. 38, pp. 2500—2505, 2007 
Unified Finite Element Discretizations of Coupled DarcyStokes Flow
Numerical Methods for Partial Differential Equations, vol. 25, pp. 311—326, 2009 
Unified Framework for Finite Element Assembly
International Journal of Computational Science and Engineering, vol. 4, pp. 231—244, 2009 
CSF Flow Dynamics at the CranioVertebral Junction Studied With an Idealized Model of the Subarachnoid Space and Computational Flow Analysis
American Journal of Neuroradiology, vol. 31, pp. 185—192, 2009 
Stability Analysis of the Inverse Transmembrane Potential Problem in Electrocardiography
Inverse Problems, vol. 26, 2010, [DOI] 
Sex Differences in Intracranial Arterial Bifurcations
Gender Medicine, vol. 7, 2010 
Efficient Preconditioners for Optimality Systems Arising in Connection With Inverse Problems
SIAM Journal on Control and Optimization, vol. 48, 2010, [DOI] 
On the Efficiency of Symbolic Computations Combined With Code Generation for Finite Element Methods
ACM Transactions on Mathematical Software, vol. 37, 2010 
Characterization of Cyclical CSF Flow in the Foramen Magnum and Upper Cervical Spinal Canal With MR Flow Imaging and Computational Fluid Dynamics
American Journal of Neuroradiology, vol. 31, pp. 997—1002, 2010, [DOI] 
Effect of Tonsilar Herniation on Cyclic CSF Flow Studied With Computational Flow Analysis
American Journal of Neuroradiology, vol. 32, pp. 1474—1481, 2011 
Flow Characteristics in a Canine Aneurysm Model: A Comparison of 4D Accelerated PhaseContrast MR Measurements and Computational Fluid Dynamics Simulations
Medical Physics, vol. 38, pp. 6300—6313, 2011 
CSF Flow in Chiari I and Syringomyelia From the Perspective of Computational Fluid Dynamics
The Neuroradiology Journal, vol. 24, pp. 20—23, 2011 
Direct Numerical Simulation of Transitional Flow in a PatientSpecific Intracranial Aneurysm
Journal of Biomechanics, vol. 44, pp. 2826—2832, 2011, [DOI] 
Order Optimal Preconditioners for Fully Implicit RungeKutta Schemes Applied to the Bidomain Equations
Numerical Methods for Partial Differential Equations, vol. 27, pp. 1290—1312, 2011, [DOI] 
Preconditioning Discretizations of Systems of Partial Differential Equations
Numerical Linear Algebra with Applications, vol. 18, pp. 1—40, 2011, [DOI] 
PatientSpecific 3D Simulation of Cyclic CSF Flow at the CranioCervical Region
American Journal of Neuroradiology, vol. 33, pp. 1756—1762, 2012 
Estimation of CSF Flow Resistance in the Upper Cervical Spine
The Neuroradiology Journal, vol. 3, pp. 49—53, 2013 
Simulating CSF Flow Dynamics in the Normal and the Chiari I Subarachnoid Space During Rest and Exertion
American Journal of Neuroradiology, vol. 34, pp. 41—15, 2013 
Analysis of the Minimal Residual Method Applied to IllPosed Optimality Systems
SIAM Journal on Scientific Computing, vol. 35, pp. A785—A814, 2013 
A Uniformly Stable Fortin Operator for the TaylorHood Element
Numerische Mathematik, vol. 123, pp. 537—551, 2013, [DOI] 
Effect of the Central Canal in the Spinal Cord on Fluid Movement Within the Cord
The Neuroradiology Journal, vol. 26, pp. 585—590, 2013 
A Study of Wall Shear Stress in 12 Aneurysms With Respect to Different Viscosity Models and Flow Conditions
Journal of Biomechanics, vol. 46, pp. 2802—2808, 2013 
HighResolution Computational Fluid Dynamics Detects HighFrequency Velocity Fluctuations in Bifurcation, But Not Sidewall, Aneurysms of the Middle Cerebral Artery
Journal of Biomechanics, vol. 46, pp. 402—407, 2013 
Spinal Fluid Biomechanics and Imaging: an Update for Neuroradiologists
American Journal of Neuroradiology, vol. 35, pp. 1864—1869, 2014, [DOI] 
Effect of CranioVertebral Decompression on CSF Dynamics in Chiari I Malformation Studied With Computational Fluid Dynamics
Journal of Neurosurgery, vol. 21, pp. 559—564, 2014 
Numerical Simulations of the Pulsating Flow of Cerebrospinal Fluid Flow in the Cervical Spinal Canal of a Chiari Patient
Journal of Biomechanics, vol. 47, pp. 1082—90, 2014 
A Multilevel Solver for Gaussian Constrained CMB Realizations
The Astrophysical Journal Supplement Series, vol. 210, 2014 
Computational fluid dynamics evaluation of flow reversal treatment of giant basilar tip aneurysm
Interventional Neuroradiology, vol. 21, pp. 586—591, 2015, [DOI] 
Poroelastic modeling of Syringomyelia – a systematic study of the effects of pia mater, central canal, median fissure, white and gray matter on pressure wave propagation and fluid movement within the cervical spinal cord
Computer Methods in Biomechanics and Biomedical Engineering, vol. 19, pp. 686—698, 2015, [DOI] 
Preconditioners for saddle point systems with trace constraints coupling 2D and 1D domains
SIAM Journal of Scientific Computing, vol. 38, 2016 
Computational Investigation of Cerebrospinal Fluid Dynamics in the Posterior Cranial Fossa and Cervical Subarachnoid Space in Patients with Chiari I Malformation
PLOS ONE, 2016 
Robust preconditioners for PDEconstrained optimization with limited observations
BIT Numerical Mathematics, 2016 
Direct numerical simulations of transitional hydrodynamics of the cerebrospinal fluid in Chiari I malformation – the role of craniovertebral junction
International Journal for Numerical Methods in Biomedical Engineering, 2016 
Robustness of common hemodynamics indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms
Accepted for publication in PLOS ONE, 2016 
Transitional hemodynamics in intracranial aneurysms  Comparative velocity investigations with high resolution Lattice Boltzmann simulations, normal resolution ANSYS simulations and MR imaging
Medical Physics, vol. 43, 2016 
Association of pulse pressure gradient across craniocervical junction as derived from phasecontrast magnetic resonance imaging and invasively measured pulsatile intracranial pressure in symptomatic patients with Chiari malformation type 1
Acta Neurochirurgica, vol. 158, 2016 
Parameterrobust discretization and preconditioning of Biot's consolidation model
SIAM Journal of Scientific Computing, 2017 
A numerical investigation of intrathecal drug and gene vector dispersion within the cervical subarachnoid space
Plos One, 2017, [DOI] 
Variational data assimilation for transient blood flow simulations
Accepted for publication in International Journal for Numerical Methods in Biomedical Engineering, 2017 
Interstitial Solute Transport in 3D Reconstructed Neuropil Occurs by Diffusion Rather than Bulk Flow
PNAS, 2017 
Robustness of common hemodynamic indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms.
PloS one, 2017
Edited Books

Automated Solution of Differential Equations by the Finite Element Method
Springer, 2012 
Proceedings of the 26th Nordic Seminar on Computational Machanics
Simula Research Laboratory, 2013
Chapters in Books

A Hybrid Approach to Efficient Finite Element Code Development
in Petascale Computing  Algorithms and Applications, Edited by , Chapman and Hall, 2007 
Can ECG Recordings and Mathematics Tell the Condition of Your Heart?
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 287—319, 2009 
Construction of Preconditioners by Mapping Properties for Systems of Partial Differential Equations
in Efficient preconditioning methods for elliptic partial differential equations, Edited by , Bentham Science Publishers, pp. 65—84, 2011 
Constructing General Reference Finite Elements
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 117—128, 2012 
Instant: JustinTime Compilation of C/C++ in Python
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 253—268, 2012 
UFC: a Finite Element Code Generation Interface
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 279—298, 2012 
Cerebrospinal Fluid Flow
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 455—470, 2012 
Lessons Learned in Mixed Language Programming
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 363—381, 2012 
Finite Element Assembly
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 137—142, 2012 
SyFi and SFC: Symbolic Finite Elements and Form Compilation
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 269—278, 2012 
Simulation of Transitional Flows
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 419—438, 2012 
A Comparison of Some Common Finite Element Schemes for the Incompressible NavierStokes Equations
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 395—418, 2012 
Computational Hemodynamics
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 439—454, 2012 
Block Preconditioning of Systems of PDEs
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 643—654, 2012 
Escaping the Zombie Threat by Mathematics
in Zombies in the Academy: Living Death in Higher Education, University of Chicago Press, 2013 
On the Assumption of Laminar Flow in Physiological Flows: Cerebral Aneurysms As an Illustrative Example
in Modeling the Heart and the Circulatory System, Edited by , Springer International Publishing, pp. 177—195, 2015 
Cerebrospinal fluid flow in adults.
in Handbook of clinical neurology, Edited by , Elsevier, pp. 591—603, 2016
Refereed Proceedings

Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
in Fourth national conference on Computational Mechanics (MekIT'07), 2007 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Effect of Tonsilar Position on Cerebrospinal Fluid Flow in the Spinal Subarachnoid Space Studied With Computational Fluid Dynamics
in ASNR  47th Annual Meeting of the American Society of Neuroradiology, 2009 
Porous and Viscous Flow Modeling on the Study of Cyst Development in the Human Spinal Cord
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
Cerebrospinal Fluid Flow Characteristics at Double Heart Rate
in Neuroradiology, 53 (Suppl. 1), S33, 35th European Soc of Neuroradiology ann. meeting, Antwerpen, Belgium, 2011 
On the Complexity of Stationary Flow in PatientSpecific Aneurysms
in MekIT'11 Sixth national conference on Computational Mechanics, 2011 
Investigations of Transistional Flows Using Image Based Hemodynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
The Effect of Varying CrossSectional Areas on Cerebrospinal Fluid Flow and Pressure in the Cervical Spine
in MekIT'11. Sixth national conference on Computational Mechanics, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011 
Effect of Oscillatory Cerebrospinal Fluid Pressure on Fluid Movement in the Spinal Cord
in Seventh National Conference on Computational Mechanics (MekIT'13), 2013 
Preliminary Study of the Impact of Spinal Cord Nerve Roots and Denticulate Ligaments on Drug Movement in the Cervical Spinal Subarachnoid Space
in The Nordic Seminar on Computational Mechanics, 2013 
Characterization of the space of rigid motions in arbitrary domains
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
BENDPY: Python framework for computing bending of complex platebeam systems
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
Exploring The Critical Reynolds Number For Transition In Intracranial Aneurysms–highly Resolved Simulations Below Kolmogorov Scales
in 4th International Conference on Computational and Mathematical Biomedical Engineering  CMBE2015, 2015
Conference Proceedings

CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
in 21st Nordic Seminar on Computational Mechanics, 2008 
PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
in 21st Nordic Seminar on Computational Mechanics, 2008 
CSF Flow in Chiari I and Syringomyelia  From the Perspective of Fluid Dynamics
in Proceedings of the XIX Symposium Neuroradiologicum, Bologna, Italy, 2010
Technical Reports

A Uniform InfSup Condition With Applications to Preconditioning
Simula, 2012 
A Multilevel Solver for Gaussian Constrained CMB Realizations
2013
Manuals

UFC Specification and User Manual 1.0
2007 
Combining FEniCS With Your Favorite Software in C, C++, Fortran, Or MATLAB
2013
Talks

Computation of Hemodynamics in the Circle of Willis
Talk at Workshop: Modelling and Computation of Biomedical Processes  June 714, 2007, 2007 
Finite Elements With Symbolic Computations and Code Generation
Talk at Software Issues in Computational Science and Engineering (SCSE 2007), Uppsala, 20070811, 2007 
Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
A Finite Element Model of Cardiac Electrophysiology and Mechanics
VII International conference on computational plasticity, 2007 
CFD Analysis of Cerebrospinal Fluid Flow in the CranioCervical Region
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Chiari Malformation  the Problem and a Mathematical Approach
Invited talk, Vindern Medical Center, 8th of December, Oslo, Norway, 2008 
Scientific Computing at Simula
Invited Talk at Workshop on Cerebral Aneurysms and Subarachnoidal Hemorrhage, Tromsø Jan 2426, 2008 
Two Steps Towards Automating Efficient Solution of Inverse Problems
Invited Talk at the FEniCS 08 Workshop, March 57,Baton Rouge, Louisiana, 2008 
Blood Flow Computations at Simula
Invited talk at Medical Physics, University of Wisconsin, March 11., 2008 
Hemodynamics in the Circle of Willis
Invited talk at Institute for Computational and Applied Mathematics, Muenster, Germany, November 18, 2008 
Cerebrospinal Fluid Flow in Normal and Chiari Subjects
talk, Seminar at CBC (Simula Research Laboratory), 16th of December, Oslo, Norway, 2008 
Cerebrospinal Fluid Flow Simulations  Normal Subjects and Patients With Chiari I Malformation
talk, Seminar at CBC (Simula Research Laboratory), 31st of October, Oslo, Norway), 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 25th of June, Oslo, Norway., 2008 
Simulating the Cerebral Fluid Flow Associated With Chiari I Malformation in Idealized Geometries
talk, Seminar at CBC (Simula Research Laboratory), 20th of May, Oslo, Norway., 2008 
Developing Flow Solver Methodology for Patientspecific Simulation of Hemodynamics
Talk at Workshop on Finite Element Methods for Fluids and FluidStructure Interaction, June 5, 2008 
SFC  the SyFi Form Compiler
Talk at the FEniCS 08 Workshop, March 57,Baton Rouge, Louisiana, 2008 
Cerebral Blood Flow
Invited talk at Telemark College, Engineering Faculty, Porsgrunn, Norway, 2009, 2009 
PatientSpecific Simulations of Stroke and Syringomyelia
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, Nov 03, 2009 
CSF Flow Modelling
Invited talk at CSR Flow Research Conference at University of Wisconsin, Nov 9, 2009 
Simulation Methodology for Bioflows
Talk : Advisory commitee meeting FFI project P1112 Aerosols: Dispersion, Transport and Consequences, May 05, 2009 
PatientSpecific Hemodynamics in FEniCS
Invited talk at the minisymposium on Computational Vascular and Cardiovascular Mechanics at USNCCM 2009, 2009 
PatientSpecific Hemodynamics in FEniCS
Presentation at the FEniCS 09 Workshop, 2009 
Cerebrospinal Fluid Flow Investigations With Modelling and Simulation
invited talk at The Chiari Institute, 14th of January, New York, U.S.A., 2009 
Simulating Normal and Abnormal CSF Flow With Idealized Geometries
talk, seminar on cerebrospinal fluid flow, 16th of January, University of Wisconsin, U.S.A., 2009 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Tonsilar Herniation  How Is the CSF Flow Influenced?
Invited talk at Rikshospitalet University Hospital, Oslo, Norway, 5th of June, 2009 
Some Biomedical Applications at Simula
Talk at the CBC Workshop on Computational Biology with UMB, 2009 
An Operator Theoretical Approach to Preconditioning Optimality Systems
Presented at the Applied Inverse Problems conference, Vienna, Austria, 2009 
The Baby Justicia Project: Biomechanical Investigations of the Shaken Baby Syndrome (SBS)
WCB2010, Seminar session, Head/Brain Injury  Models, 2010 
Cerebrospinal Fluid (CSF)  Oscillating Flow and Pressure
CBC Workshop on Aerosols: Dispersion, Transport and Effects, Simula, November 10, 2010 
CSF Hydrodynamic in Patients With Syringomyelia and Chiari I Malformations
Annual NUPUS meeting in Freudenstadt, 2010 
CSF Strømning I Forbindelse Med Chiari Malformasjon Og Syringomyelia
CBC Workshop on Clinical Issues Related to the Cerebrospinal Fluid, 2010 
From a Physical Problem to Computer Simulations
CBC Workshop on Cerebrospinal Fluid Flow in the Brain and Spinal Canal  Clinical, Experimental and Mathematical Models and Problems, Simula, May 28, 2010 
Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011 
FEniCS: an Attempt to Combine Simplicity, Generality, Efficiency and Reliability
Pythonbased Software for Solving Partial Differential Equations Minisymposium at SIAM Conference on Computational Science and Engineering, 2011 
Simulating Blood Flow in Cerebral Aneurysm
Minisymposium Numerical Methods for Biomedical Problems on Enumath, 2011 
The Finite Element Library FEniCS and Simulation of Blood Flow in Cerebral Aneurysms
Talk at CSB Seminar, University of Stuttgart, 2011 
Efficient Preconditioning of Optimality Systems
Precond 11, 2011 
Computational Cerebral Hemodynamics
The Norwegian Defence Research Establishment, 2011 
Simulation Methodology for Cerebral Blood Flow
Biomedical Simulation Lab, Institute of Biomaterials and Biomedical Engineering at the University of Toronto, 2011 
Direct Numerical Simulation of Transitional Flow in PatientSpecific Intracranial Aneurysms
ASME 2011 Summer Bioengineering Conference, 2011 
'Turbulence' in Cerebral Aneurysms
CBC Workshop on Biomechanics, 1718 November, 2011 
Will FEniCS Fly?
FEniCS 12 workshop, 2012 
The Finite Element Library FEniCS + Blood Flow Simulations in Cerebral Aneurysms
Marsden's lab at UCSD, 2012 
The Finite Element Library FEniCS
Steinman's lab, University of Toronto, 2012 
CSF Flow Dynamics: Effects of Viscosity and Inertia
ANSR 2012, New York, 2012 
The Minimal Residual Method Applied to IllPosed Optimality Systems; Eigenvalues and Convergence Properties
Numerical Methods for Optimal Control and Inverse Problems workshop, Munich, Germany, 2012 
Are Zombies a Threat to Mankind?
Invited talk for the opening of RF kjelleren at the University of Oslo, 2012 
Efficient Preconditioning of Optimality Systems
EMG 2012, 2012 
On WellPosedness and Stability
CBC Seminar series, 2012 
NonNewtonian Effects in Cerebral Aneurysms. a Computational Study on 12 Patient Specific Aneurysms
ICS '12, 2012 
Blood Flow in Cerebral Aneurysms  Can Turbulence Be a Risk Indicator?
SDU workshop, 2012 
PatientSpecific Simulations of Vasospasm in 3 Different Cases
Modelling Physiological Flows, 2013 
Efficient Preconditioning of Optimality Systems With NonSelfAdjoint State Operators
IFIP 2013, minisymposia Preconditioning for PDEConstrained Optimization, Linz, Austria, 2013 
Operator Preconditioning for WellPosed and IllPosed Problems
Preconditioning 2013, 2013 
On the Assumption of Laminar Flow in the Modeling of Physiological Flow
Modelling of physiological flows (MPF 2013), 2013 
Er Zombier En Trussel Mot Menneskeheten?
Upop aften  Det norske student samfund, 2014 
On the Assumption of Laminar Flow in the Modeling of Physiological Flow
Anvendt og beregningsorientert matematikk, Bergen, 2014 
On the Assumption of Laminar Flow of CSF in Chiari Patients
international Chiari Research Group, 2014 
CSF Flow at Foramen Magnum
International Hydrocephalus Imaging Working Group,Montreal, Canada, 2014 
On Numerical Methods for Transitional Flow  Application to Blood Flow in Aneurysms
Quality and Validation of Computational Cardiovascular Biomechanics, WCCMECCMECCOM, 2014 
Cerebrospinal Fluid Flow in Association With the Central Nervous System  Chiari and Drug Delivery
MS on Computational Biomechanics, WCCMECCMECCOM, 2014 
Effect of Spinal Cord Viscoelasticity on Its Response to CSF Pressure Waves: a Computational Study
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, Chicago, Illinois, 2015 
Poroelastic modeling of Syringomyelia  the effects of pia mater, central canal, median fissure, white and grey matter on pressure wave propagation and fluid movement within the cervical spinal cord
International Hydrocephalus Imaging Working Group, Chicago, 2015 
Role of CSF flow in the pathogenesis of Syringomyelia
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, 2015; Chicago, Illinois, 2015 
On the complexity of the Cerebrospinal fluid flow in the upper spinal column – is the assumption of laminar flow appropriate?
Cerebrospinal Fluid Dynamics Society Meeting, Amiens, 2015 
Computational modelling of the biomechanics in the central nervous system – Chiari and syringomyelia
Complex materials; Mathematical models and numerical methods, Oslo, 2015 
Flows in complex geometries such as blood vessels and the central nervous system
EarthFlows kickoff meeting, Oslo, 2015 
Computational modelling of the biomechanics in the central nervous system – Chiari and syringomyelia
Simpla meeting, Oslo, 2015 
Computational modelling of the biomechanics in the central nervous system – Chiari and syringomyelia
Simula Research Laboratory, Oslo, 2015 
Overview of the modeling of water flow in and surrounding the central nervous system
Istituto Italiano di Tecnologia, Piza, Italy, 2016 
Brain & Water:computational modeling of the aging brain
MedViz conference, Bergen, 2016 
Variational data assimilation for blood flow simulations
MS at SIAM UQ, Zurich, 2016 
Robustness of common hemodynamics indicators with respect to numerical resolution in 38 middle cerebral artery aneurysms
MS at WCCM16, Seoul, 2016 
Experimental investigation of transitional effects at low Reynolds number in blood vessels: Xray, Microphones and Simulations
EarthFlows Workshop, UiO, Oslo, 2016 
Poroelastic modeling of the central nervous system: Chiari and dementia
Workshop on modeling of flow in live tissue: Methodological interaction between geo and lifesciences, CMR, Fantoft, Bergen, 2016 
Modelling and simulation of viscous and poroelastic fluid flow in the brain
FEniCS16, Simula Research Laboratory, 2016 
On accurate and efficient simulations of multiplenetwork poroelastic modelling with applications to interstitial fluid flow in the human brain
WCCM XII & APCOM VI, Seoul, 2016 
Simulating Cerebrospinal Fluid Flow and Spinal Cord Movement Associated with Syringomyelia
Chalmers Institute of Technology, 2016 
Modelling pulsatility in the context of NormalPressure Hydrocephalus via multiplenetwork poroelasticity
5th International Conference on Computational and Mathematical Biomedical Engineering, Pittsburgh, US, 2017 
Physics of oscillatory CSF Flow
ASSR, San Diego, 2017 
Experimental investigation of transitional effects at low Reynolds number in blood vessels  Xray, microphones and simulations
CMBE 2017, Pittsburgh, 2017 
Simulating the fluid flow of the lymphatic system  extracellular fluid flow
The 4th CSF symposium, Atlanta, 2017 
Computational modeling of the glymphatic system: how is waste cleared from the brain?
HPCSE 2017, Ostrava, 2017
Posters

Revisiting 'Turbulence' in Cerebral Aneurysms
2012 
On NonNewtonian Effects in Cerebral Aneurysms: a Computational Study on 12 Patient Specific Aneurysms
2012
Andre Massing
Articles in International Journals

Efficient Implementation of Finite Element Methods on Nonmatching and Overlapping Meshes in Three Dimensions
SIAM Journal on Scientific Computing, vol. 35, pp. C23—C47, 2013, [DOI] 
CutFEM: Discretizing Geometry and Partial Differential Equations
International Journal of Numerical Methods in Engineering, vol. 104, pp. 472—501, 2014 
A Stabilized Nitsche Fictitious Domain Method for the Stokes Problem
Journal of Scientific Computing, vol. 61, pp. 604—628, 2014, [DOI] 
A Stabilized Nitsche Overlapping Mesh Method for the Stokes Problem
Numerische Mathematik, vol. 128, pp. 73—101, 2014, [DOI] 
A Nitschebased Cut Finite Element Method for a FluidStructure Interaction Problem
Communications in Applied Mathematics and Computational Science, vol. 10, pp. 97—120, 2015, [DOI] 
A Stabilized Cut Finite Element Method for the Three Field Stokes Problem
SIAM Journal on Scientific Computing, vol. 37, pp. A1705—A1726, 2015 
A cut discontinuous Galerkin method for the Laplace–Beltrami operator
IMA Journal of Numerical Analysis, vol. 37, pp. 138—169, 2016, [DOI]
Edited Books

Proceedings of the 26th Nordic Seminar on Computational Machanics
Simula Research Laboratory, 2013
Refereed Proceedings

Towards an Implementation of Nitsche's Method on Overlapping Meshes in 3D
in AIP Conference Proceedings (ICNAAM 2010), 2010 
A Stabilized Nitsche Fictitious Domain Formulation for the ThreeField Stokes Problem
in The 26th Nordic Seminar on Computational Mechanics, 2013
Theses

Analysis and Implementation of Finite Element Methods on Overlapping and Fictitious Domains
Ph.D. Thesis, University of Oslo, 2012
Talks

Convergence Theory for Adaptive Finite Elements
AC/DC seminar series, 2010 
Nitsche's Method on Overlapping Meshes in 3D
AC/DC seminar series, 2010 
Efficient Implementation of Nitsche's Method on Overlapping Meshes for Interface Problems in 3D
FEF 2011, Munich, Germany, 2011 
Efficient Implementation of Nitsche's Method on Overlapping Meshes for Coupled Problems in 3D
Coupled Problems 2011, Kos, Greece, 2011 
Efficient Implementation of Nitsche's Method on Overlapping Meshes in 3D
CSE 2011, Reno Nevada, USA, 2011 
Nitsche's Method for Fictitious Domain and Overlapping Meshes (in 3D)
FEniCS'11 / Red Raider Minisymposium 2011, Texas Tech University, Lubbock, November 2011, 2011 
Nitsche's Method for Fictitious Domain and Overlapping Meshes (in 3D)
UMIT Research Seminar, Umeå, Sweden, 2011 
The C(ontinuous) I(nterior) P(enalty) Method
CBC Seminar series, 2012 
Nitsche's Method for Fictitious Domains and Overlapping Meshes: Analysis and Implementation
FEniCS 12, 2012 
NitscheBased Overlapping and Fictitious Domain Methods for the Stokes Problem
Chemnitz FEM Symposium, 2012 
NitscheBased Finite Element Methods Problem on Cut and Composite Meshes  a Look Behind the Scenes
ACM Seminar, Institute for Computational Mechanics, TU München, 2012 
NitscheBased Finite Element Methods for the Stokes Problem on Cut and Composite Meshes
Graduate School CE Seminar, Darmstadt, 2012 
NitscheBased Finite Element Methods for the Stokes Problem on Cut and Composite Meshes
Brighton, 2012 
NitscheBased Finite Element Methods for the Stokes Problem on Cut and Composite Meshes
Internal seminar, TU Darmstadt, 2012 
NitscheBased Finite Element Methods for the Stokes Problem on Cut and Composite Meshes
Internal Seminar, University of Oslo, 2012 
A Robust NitscheBased FixedGrid Method for Fluid Problems With Applications to DomainBridging and FSI Problems
FEF2013, San Diego, 2013 
Analysis and Implementation of NitscheBased DomainBridging Method for Fluid Problems
SIAM CSE'13, Boston, 2013 
Finite Element Methods for Cut and Composite Meshes Using FEniCS
FEniCS'13, Cambridge, 2013 
Cut and Composite Mesh Methods for FluidStructure Interaction Problems With Large Deformation
Coupled Problems 2013, Ibiza, 2013 
NitscheBased Finite Element Methods on Cut and Composite Meshes
AMCG Seminar, Imperial College, London, 2013 
NitscheBased Finite Element Methods on Cut and Composite Meshes
USNCCM12, Raleigh, 2013 
NitscheBased Cut and Composite Mesh Methods for Fluid and FluidStructure Interaction Problems
XFEM 2013, Lyon, 2013 
Computing Physiological Flows: From Cutting Meshes and Automated Code Generation to Optimization of Flow
Mox Seminar, Politecnico di Milano, Milan, 2013 
Cut Finite Element Methods for Fluid and FluidStructure Interaction Problems
Advances in FluidStructure Interaction, Tokyo, Japan, 2014 
Cut Finite Element Methods for MultiPhysics Problems (in FEniCS!)
18th European Conference on Mathematics for Industry, 2014 
Developing simulation technology to solve biomedical problems: analysis, implementation and applications
University of Uppsala, 2016
Andrew D. McCulloch
Articles in International Journals

Cardiac Resynchronization: Insight From Experimental and Computational Models
Progress in Biophysics and Molecular Biology, vol. 97, pp. 543—561, 2008, [DOI] 
Mechanisms of Transmurally Varying Myocyte Electromechanics in an Integrated Computational Model
Philosophical Transactions of the Royal Society A, vol. 366, pp. 3361—3380, 2008, [DOI] 
Discovering Regulators of the Drosophila Cardiac Hypoxia Response Using Automated Phenotyping Technology
Annals of the New York Academy of Sciences, vol. 1123, pp. 169—177, 2008, [DOI] 
The Role of Mechanoelectric Feedback in Vulnerability to Electric Shock
Progress in Biophysics and Molecular Biology, vol. 97, pp. 461—478, 2008, [DOI] 
Effect of Transmurally Heterogeneous Myocyte Excitationcontraction Coupling on Canine Left Ventricular Electromechanics
Experimental Physiology, vol. 94, pp. 541—552, 2009, [DOI] 
Metabolism As Means for Hypoxia Adaptation: Metabolic Profiling and Flux Balance Analysis
BMC Systems Biology, vol. 3, pp. 3—91, 2009, [DOI] 
Hypertrophic Gene Expression Induced by Chronic Stretch of Excised Mouse Heart Muscle
Mol Cell Biomech., vol. 6, pp. 145—159, 2009 
Systems Approaches and Algorithms for Discovery of Combinatorial Therapies
Systems Biology and Medicine, vol. 2, pp. 181—193, 2009, [DOI] 
Cardiac Myocyte Force Development During Differentiation and Maturation
Annals of the New York Academy of Sciences, vol. 1188, pp. 121—127, 2010, [DOI] 
Numerical Analysis of Ca2+ Signaling in Rat Ventricular Myocytes With Realistic TransverseAxial Tubular Geometry and Inhibited Sarcoplasmic Reticulum
PLoS Computational Biology, vol. 6, pp. e1000972, 2010, [DOI] 
Systems Approaches and Algorithms for Discovery of Combinatorial Therapies
Wiley Interdisciplinary Reviews: Systems Biology and Medicine, vol. 2, pp. 93, 2010, [DOI] 
Coupling of Adjacent Tropomyosins Enhances CrossBridgeMediated Cooperative Activation in a Markov Model of the Cardiac Thin Filament
Biophysical Journal, vol. 98, pp. 2254—2264, 2010, [DOI] 
Determination of ThreeDimensional Ventricular Strain Distributions in GeneTargeted Mice Using Tagged MRI
Magnetic Resonance in Medicine, vol. 64, pp. 1281—1288, 2010, [DOI] 
Ventricular Dilation and Electrical Dyssynchrony Synergistically Increase Regional Mechanical NonUniformity But Not Mechanical Dyssynchrony; a Computational Model
Circulation: Heart Failure, vol. 3, pp. 528—536, 2010 
On Defining Candidate Drug Characteristics for LongQT
Mathematical Biosciences and Engineering, vol. 8, pp. 861—873, 2011 
MultiScale Computational Models of Familial Hypertrophic Cardiomyopathy: Genotype to Phenotype
Journal of the Royal Society Interface, vol. 8, 2011, [DOI] 
Improvement in Pump Function With Endocardial Biventricular Pacing Increases With Activation Time at the Left Ventricular Pacing Site in Failing Canine Hearts
American Journal of Physiology  Heart and Circulatory Physiology, vol. 301, pp. H1447—H1455, 2011, [DOI] 
Modeling Cardiac Calcium Sparks in a ThreeDimensional Reconstruction of a Calcium Release Unit
The Journal of Physiology, vol. 590, pp. 4403—4422, 2012 
Modeling Effects of LType Ca2+ Current and Na+Ca2+ Exchanger on Ca2+ Trigger Flux in Rabbit Myocytes With Realistic TTubule Geometries
Frontiers in Physiology, vol. 3, pp. 351, 2012 
Slow CalciumDepolarizationCalcium Waves May Initiate Fast Local Depolarization Waves in Ventricular Tissue
Progress in Biophysics and Molecular Biology, vol. 110, pp. 295—304, 2012 
PatientSpecific Models of Cardiac Biomechanics
Journal of Computational Physics, vol. 244, pp. 4—21, 2013, [DOI] 
Molecular and SubcellularScale Modeling of Nucleotide Diffusion in the Cardiac Myofilament Lattice
Biophysical Journal, vol. 105, pp. 2130, 2013, [DOI] 
Biomechanics of Cardiac Electromechanical Coupling and Mechanoelectric Feedback.
Journal of Biomechanical Engineering, vol. 136, 2014 
Improved Discretisation and Linearisation of Active Tension in Strongly Coupled Cardiac ElectroMechanics Simulations
Computer Methods in Biomechanics and Biomedical Engineering, vol. 17, pp. 604—15, 2014 
Nonequilibrium reactivation of Na+ current drives early afterdepolarizations in mouse ventricle
Circulation: Arrhythmia and Electrophysiology, vol. 7, pp. 1205—1213, 2014 
Toward a hierarchy of mechanisms in CaMKIImediated arrhythmia
Frontiers in Pharmacology, vol. 5, 2014 
A novel computational model of mouse myocyte electrophysiology to assess the synergy between Na+ loading and CaMKII
The Journal of physiology, vol. 592, pp. 1181—1197, 2014 
Computational modeling of subcellular transport and signaling
Current Opinion in Structural Biology, vol. 25, pp. 92–97, 2014, [DOI] 
Increased Membrane Capacitance Is the Dominant Mechanism of StretchDependent Conduction Slowing in the Rabbit Heart: a Computational Study
Cellular and Molecular Bioengineering, vol. 8, pp. 237—246, 2015 
Highorder finite element methods for cardiac monodomain simulations
Frontiers in Physiology, 2015, [DOI] 
Computing rates of Markov models of voltagegated ion channels by inverting partial differential equations governing the probability density functions of the conducting and nonconducting states
Mathematical Biosciences, vol. 277, pp. 126—135, 2016
Chapters in Books

A Computational Framework for PatientSpecific MultiScale Cardiac Modeling
in PatientSpecific Modeling of the Cardiovascular System; TechnologyDriven Personalized Medicine, Springer, pp. 202—223, 2010 
Calcium Signaling in Cardiomyocyte Models With Realistic Geometries (6th Edition)
in Cardiac Electrophysiology: From Cell to Bedside, Edited by , Elsevier Science, pp. 33.1—33.10, 2013 
Calcium Signaling in Cardiomyocyte Models With Realistic Geometries (7th Edition)
in Cardiac Electrophysiology: From Cell to Bedside, Edited by , Elsevier Science, 2016
Refereed Proceedings

SourcetoSource Optimization of CUDA C for GPU Accelerated Cardiac Cell Modeling
in Proceedings of EuroPar 2010, 2010
Conference Proceedings

GPU Accelerated Solvers for ODEs Describing Cardiac Membrane Equations
in Proceeding of the GPU technology Conference, 2009 
GPU Accelerated Electrophysiology Simulations
in Proceedings of the 2009 ACM/IEEE Conference on supercomputing (SC 2009), 2009 
A MarkovState Model for the Regulation of the Sarcoplasmic Reticulum Ca2+ ATPase by Phospholamban
in Annual meeting in Biophysical society, 2014
Talks

MultiScale Modeling of Cardiac Electromechanical Interactions
Talk at CBC Workshop on Biomedical Computing, Simula, 2007 
Seminar: MultiScale Modeling of the Heart
Talk at the MURPA eSeminar, Monash University, Melbourne, Australia, 2008 
Towards ImageBased PatientSpecific MultiScale Modeling of the Failing Heart
Invited talk at the 2008 SIAM Life Sciences Conferences, Session MS35, Montreal, Canada, 2008 
Physiome Research in the USA
Invited talk at ICTBIO, The European Commission, Brussels, 2008 
Mechanobiology of Normal and Failing Myocardium
Talk at the Physiology Department, Oxford University, 2008 
Emerging Role for MultiScale Modeling in the Biomechanical Device Industry
Keynote talk at the 3rd ASME Frontiers in Biomechanical Devices Conference, Irvine, California, USA, 2008 
Systems Biology and MultiScale Modeling of the Heart
Seminar at the University of Washington, Department of Bioengineering, 2008 
Systems Biology and MultiScale Modeling of the Heart
Plenary lecture at Pacific Biocomputing Symposium, Kona, Hawaii, 2008 
Systems Biology and MultiScale Modeling of the Heart
Talk at University of Illinois, Chicago, Department of Physiology and Biophysics, 2008 
MultiScale Modeling of Cardiac Mechanoenergetics
Talk at the Welcome Trust Physiome Workshop on Multiscale Modeling of the heart, Auckland, New Zealand, 2008 
MultiScale Modeling of Cardiac Electromechanics
Talk at the Biomechanical Engineering Math Seminar, Worchester Polytechnic Institute, 2008 
MultiScale Modeling of Cardiac Electromechanics
Talk at the Symposium on Computational Physiology, Experimental Biology 2008, San Diego, 2008 
MultiScale Modeling and Systems Biology of Cardiac Regulatory Mechanisms
Invited talk at the MEI International Symposium Physiome and Systems Biology for Integrated Life Sciences and Predictive Medicine, San Fransisco, 2008 
MultiScale Modeling of the Heart
Invited talk at the NCRR P41 Directors, National Library of Medicine, NIH, Bethesda, Maryland, USA, 2008 
MultiScale Modeling of Ventricular Electromechanics
Invited talk at the Cardiovascular System Dynamics Society HVIII Conference, St. Louis, USA, 2008 
Mechanosensing and Mechanotransduction in the Myocardium
Seminar at the Cardiology Department, Academic Hospital Maastricht, The Netherlands, 2008 
GPU Accelerated Electrophysiology Simulations.
Talk, Poster at GPU Technology conference, San Jose, California, 2009 
GPU Accelerated Electrophysiology Simulations
Talk, poster at the 2009 ACM/IEEE Conference on Supercomputing (SC 2009), 2009 
MultiScale Modeling of the Failing Heart:
From Mouse to Man
SimulaUiOUCSD Summer School in Cardiac Modeling, 2014
Posters

A Stochastic Model of the Ryanodine Receptor Featuring Coupled Gating and Competitive Binding of Luminal and Cytosolic Ca2+ and Mg2+
2011 
Modeling Calcium Sparks in a ThreeDimensional Reconstruction of a Cardiac Calcium Release Unit
2012 
βARStimulation Causes EADs But Not DADs in PreFailure CAMKIIδC Transgenic Myocytes
Biophysical Society annual meeting, 2012 
Modeling Calcium Dynamics in Realistic Rabbit Ventricular Myocytes With Several Transverse Tubules
2012
Kristin Sarah Mcleod
Articles in International Journals

A statistical shape modelling framework to extract 3D shape biomarkers from medical imaging data: Assessing arch morphology of repaired coarctation of the aorta
BMC Medical Imaging, 2016, [DOI] 
Looks do matter: Aortic arch shape following hypoplastic left heart syndrome palliation correlates with cavopulmonary outcomes
Annals of Thoracic Surgery, 2016, [DOI] 
Ventricular structure in ARVC: Going beyond volumes as a measure of risk
Journal of Cardiovascular Magnetic Resonance, vol. 18, pp. 73, 2016, [DOI] 
How Successful is Successful? Aortic Arch Shape Following Successful Aortic Coarctation Repair Correlates with Left Ventricular Function
The Journal of Thoracic and Cardiovascular Surgery, vol. 153, pp. 418—427, 2016, [DOI] 
Detecting Clinically Meaningful Shape Clusters in Medical Image Data: Metrics Analysis for Hierarchical Clustering applied to Healthy and Pathological Aortic Arches
IEEE Transactions on Biomedical Engineering, 2017, [DOI]
Books

Statistical Atlases and Computational Models of the Heart. Imaging and Modelling Challenges
Springer International Publishing, 2017
Refereed Proceedings

Fast Sweeping vs. Fast Marching for Eikonal Methods of Electrophysiology  A Potential for Significantly More Efficient Computation?
in Cardiac Physiome Workshop, Auckland, New Zealand, 2015 
New Insights in VentriculoArterial Coupling and Ventricular Shape in Repaired Tetralogy of Fallot: A Retrospective Cohort Study
in 19th Annual Scientific Sessions of the Society for Cardiovascular Magnetic Resonance (SCMR), 2016 
Looks Do Matter! Aortic Arch Shape Following Hypoplastic Left Heart Syndrome Palliation Correlates with Cavopulmonary Physiology and Outcomes
in 52nd Annual Meeting of The Society of Thoracic Surgeons, 2016 
CMRbased 3D Statistical Shape Modelling Reveals Left Ventricular Morphological Differences Between Healthy Controls and Arterial Switch Operation Survivors
in 19th Annual Scientific Sessions of the Society for Cardiovascular Magnetic Resonance (SCMR), 2016 
Quantitative Measures of Right Ventricular Shape Abnormalities in ARVC Patients
in 24th Annual Meeting of the International Society for Magnetic Resonance in Medicine, 2016 
Ventricular Shape In TGA Patients Differs Significantly From Controls
in American Heart Association Scientific Sessions, 2016 
From MR image to patientspecific simulation and populationbased analysis:Tutorial for an openly available imageprocessing pipeline
in MICCAI Workshop on Statistical Atlases and Cardiac Models of the Heart, 2016 
Improving Understanding of LongTerm Cardiac Functional Remodelling via CrossSectional Analysis of Polyaffine Motion Parameters
in Functional Imaging and Modelling of the Heart, 2017 
A multiple kernel learning framework to investigate the relationship between ventricular fibrillation and first myocardial infarction
in Functional Imaging and Modelling of the Heart, 2017
Mikael Mortensen
Articles in International Journals

Conditional Velocity Statistics in the Double Scalar Mixing Layer  a Mapping Closure Approach
Combustion Theory and Modelling, vol. 12, pp. 929—941, 2008, [DOI] 
Derivation of the Conditional Moment Closure Equations for Spray Combustion
Combustion and Flame, vol. 156, pp. 62—72, 2009, [DOI] 
Towards Sensitizing the Nonlinear v^2f Model to Turbulence Structures
Flow, Turbulence and Combustion, vol. 83, pp. 185—203, 2009, [DOI] 
Assessment of the Finite Volume Method Applied to the V^2  F Model
International Journal for Numerical Methods in Fluids, vol. 63, pp. 495—516, 2010, [DOI] 
A FEniCSBased Programming Framework for Modeling Turbulent Flow by the ReynoldsAveraged NavierStokes Equations
Advances in Water Resources, vol. 34, pp. 1082—1101, 2011, [DOI] 
Direct Numerical Simulation of Transitional Flow in a PatientSpecific Intracranial Aneurysm
Journal of Biomechanics, vol. 44, pp. 2826—2832, 2011, [DOI] 
Assessment of the presumed mapping function approach for the stationary laminar flamelet modelling of reacting double scalar mixing layers
Combustion Theory and Modelling, vol. 18, pp. 552—581, 2014, [DOI] 
Oasis: A highlevel/highperformance open source Navier–Stokes solver
Computer Physics Communications, vol. 188, pp. 177 — 188, 2015, [DOI] 
High Performance Python for Direct Numerical Simulation of Turbulent Flows
Computer Physics Communications, vol. 203, pp. 53—65, 2016 
Preconditioners for saddle point systems with trace constraints coupling 2D and 1D domains
SIAM Journal of Scientific Computing, vol. 38, 2016 
A numerical investigation of intrathecal drug and gene vector dispersion within the cervical subarachnoid space
Plos One, 2017, [DOI]
Books

Computational Fluid Dynamics for Engineers
Cambridge University Press, 2012
Chapters in Books

Simulation of Transitional Flows
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 419—438, 2012 
A Comparison of Some Common Finite Element Schemes for the Incompressible NavierStokes Equations
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 395—418, 2012
Refereed Proceedings

Modelling Adverse PressureGradient Boundary Layers Using the Nonlinear V2f Model in Combinationwith a Structure Based Model
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
On the Complexity of Stationary Flow in PatientSpecific Aneurysms
in MekIT'11 Sixth national conference on Computational Mechanics, 2011 
Investigations of Transistional Flows Using Image Based Hemodynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
CBC.RANS  a New Flexible, Programmable Software Framework for Computational Fluid Dynamics
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
A Second Order Fast Sweeping Method for the Eikonal Equation Based on Minimization
in The Nordic Seminar on Computational Mechanics, 2013 
Preliminary Study of the Impact of Spinal Cord Nerve Roots and Denticulate Ligaments on Drug Movement in the Cervical Spinal Subarachnoid Space
in The Nordic Seminar on Computational Mechanics, 2013 
Implementation, verification and validation of large eddy simulation models in Oasis
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
A pseudospectral study of KelvinHelmholtz instability
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
Characterization of the space of rigid motions in arbitrary domains
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
Towards a continuous and discontinuous Galerkin method for multiphase flows
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
BENDPY: Python framework for computing bending of complex platebeam systems
in MekIT'15 8th National Conference on Computational Mechanics, 2015 
The Oasis NavierStokes Solver: Theory, Accuracy, Applications, and HighPerformance Computing Capabilities.
in FEniCS 16, 2016 
The FDA Nozzle Benchmark: In Theory There Is No Difference Between Theory and Practice, but in Practice There Is.
in American Society of Mechanical Engineers Summer Biomechanics, Bioengineering and Biotransport Conference, 2016 
A Benchmark Standard Model of a Generic Medical Device; All Models Are Wrong, but Some Are Useful.
in 11th International Symposium on Biomechanics in Vascular Biology and Cardiovascular Disease, 2016
Conference Proceedings

Flexible Software Tools for Computational Turbulence
in Proceedings of the 25th Nordic Seminar on Computational Mechanics (NSCM25), 2012
Talks

Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
The Finite Element Library FEniCS and Simulation of Blood Flow in Cerebral Aneurysms
Talk at CSB Seminar, University of Stuttgart, 2011 
Computational Cerebral Hemodynamics
The Norwegian Defence Research Establishment, 2011 
Simulation Methodology for Cerebral Blood Flow
Biomedical Simulation Lab, Institute of Biomaterials and Biomedical Engineering at the University of Toronto, 2011 
Direct Numerical Simulation of Transitional Flow in PatientSpecific Intracranial Aneurysms
ASME 2011 Summer Bioengineering Conference, 2011 
'Turbulence' in Cerebral Aneurysms
CBC Workshop on Biomechanics, 1718 November, 2011 
Flexible Software Tools for Computational Turbulence
Keynote talk at the 25th Nordic Seminar on Computational Mechanics, 2012 
Flexible Specification of Large Systems of Nonlinear PDEs
Keynote talk at the 2nd HPC^3 Workshop on HighPerformance Computing, KAUST, SaudiArabia, 2012 
Preliminary Study of the Impact of Spinal Cord Nerve Roots and Denticulate Ligaments on Drug Movement in the Cervical Spinal Subarachnoid Space
Nordic Semiar on Computational Mechanics, 2013 
FEniCS: a Free Software for the Automated and Efficient Solution of Differential Equations
University of Waterloo, Department of Mechanical and Mechatronics Engineering, Seminar Series, 2013 
FEniCS and Its Application in Biomedical Computing
Charles University in Prague, Czech Republic, 2013 
Cerebrospinal Fluid Flow in Association With the Central Nervous System  Chiari and Drug Delivery
MS on Computational Biomechanics, WCCMECCMECCOM, 2014 
FEniCS  A Free Software Framework for Efficient Solution of Differential Equations, with Applications in Mechanics
Prague, 2014 
Implementation, verification and validation of large eddy simulation models in Oasis
MekIT  Conference on Computational Mechanics  NTNU, Trondheim, Norway, 2015
Public Outreach

Kan Vi Regne Ut Hvem Som Får Hjerneslag?
2012
Oddrun Christin Myklebust
Conference Proceedings

PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
in 21st Nordic Seminar on Computational Mechanics, 2008
Talks

PatientSpecific Computational Fluid Dynamic Simulations in the Circle of Willis
Invited talk at the 21st Nordic Seminar on Computational Mechanics, Trondheim, October 1617, 2008 
Scientific Computing at Simula
Invited Talk at Workshop on Cerebral Aneurysms and Subarachnoidal Hemorrhage, Tromsø Jan 2426, 2008 
Blood Flow Computations at Simula
Invited talk at Medical Physics, University of Wisconsin, March 11., 2008 
PatientSpecific Hemodynamics in FEniCS
Presentation at the FEniCS 09 Workshop, 2009
Tuomo MäkiMarttunen
Articles in International Journals

An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Harish Narayanan
Articles in International Journals

The Micromechanics of FluidSolid Interactions During Growth in Porous Soft Biological Tissue
Biomechanics and Modeling in Mechanobiology, vol. 8, pp. 167—181, 2009, [DOI]
Chapters in Books

A Comparison of Some Common Finite Element Schemes for the Incompressible NavierStokes Equations
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 395—418, 2012 
A Computational Framework for Nonlinear Elasticity
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 527—544, 2012
Refereed Proceedings

Experimental and Computational Investigation of Viscoelasticity of Native and Engineered Ligament and Tendon
in Cellular, Molecular and Tissue Mechanics, 2010
Conference Proceedings

Collaborative Computational Frameworks and the Growth Problem
in The mathematics of growth and remodelling of soft biological tissues, 2008
Talks

The Numerical Implications of MultiPhasic Mechanics Assumptions Underlying Growth Models
Talk at the Ninth U.S. National Congress on Computational Mechanics, San Fransisco, California, 2007 
Reshaping Tumour Growth
Talk at the 2007 University of Michigan Engineering Graduate Student Symposium, Ann Arbor, Michigan, 2007 
Toward a GoalOriented ErrorControlled Solver for the Incompressible NavierStokes Equations
Talk at the 2008 Robust Flow Solver Workshop at Simula Research Laboratory, Oslo, Norway, 2008 
The Role of K+ Channels in Human Articular Chondrocyte Electrophysiology: a Computational Perspective
CaMo Seminar, Oslo, Norway, 2011 
A Continuum Model for Active Cardiac Muscle
World congress on Computational Mechanics, Barcelona, Spain, 2014
Valeriya Naumova
Articles in International Journals

Extrapolation in variable RKHSs with application to the blood glucose reading
Inverse Problems, vol. 27, pp. 075010, 2011 
Parameter Choice Strategies for MultiPenalty Regularization
SIAM Journal on Numerical Analysis, vol. 52, pp. 1770—1794, 2014, [DOI] 
Minimization of MultiPenalty Functionals by Alternating Iterative Thresholding and Optimal Parameter Choices
Inverse Problems, vol. 30, pp. 1—35, 2014, [DOI] 
Regularized collocation for spherical harmonics gravitational field modeling
GEM  International Journal on Geomathematics, vol. 5, pp. 81—98, 2014 
Conditions on optimal support recovery in unmixing problems by means of multipenalty regularization
Inverse Problems, vol. 32, 2016, [DOI]
Chapters in Books

Granger Causality for IllPosed Problems: Ideas, Methods, and Application in Life Sciences
in Statistics and Causality: Methods for Applied Empirical Research, Edited by , John Wiley & Sons Limited Wiley, pp. 1—41, 2015 
MetaLearning Based Blood Glucose Predictor for Diabetic Smartphone App
in Prediction Methods for Blood Glucose Concentration. Lecture Notes in Bioengineering., Springer International Publishing, pp. 93—105, 2016 
Multipenalty regularization for detecting relevant variables
in Recent Applications of Harmonic Analysis to Function Spaces, Differential Equations, and Data Science, Edited by , Springer International Publishing, 2017
Refereed Proceedings

Dictionary Learning from Incomplete Data for Efficient Image Restoration
in EUSIPCO, 2017
Talks

MetaLearning Approach to the Image Denoising Problem
SIAM Conference on Imaging Science, 2014 
Minimization of MultiPenalty Functionals by Alternating Iterative Thresholding and Optimal Parameter Choices
SIAM Conference on Uncertainty Quantification, 2014 
MetaLearning Based Blood Glucose Predictor for Diabetic Smartphone App
Workshop on Design, use and evaluation of prediction methods for blood glucose concentration, 2014 
Autumn School on Mathematical Imaging and Statistical Learning
University of Verona, 2014 
Numerical Methods for Diabetes Technology
UCSD, 2014 
Multipenalty Regularization for HighDimensional Data Learning
UCSD, 2014 
Innovative solution of unmixing problems by means of multipenalty regularization: theoretical and algorithmical aspects
University of Graz, 2016 
Dictionary Learning from Incomplete Data
2016 SIAM Conference on Imaging Science, 2016 
From Big Data to Big Insights
EUMLS Final Conference, 2016 
Image separation using multipenalty regularization
CEA Saclay, France, 2017 
Advanced statistics and data analysis for blood glucose prediction and diabetes
Universitäres Herzzentrum Hamburg, 2017 
Innovative solution of unmixing problems by means of multipenalty regularization
Applied Inverse Problems, Hangzhou, China, 2017
Posters

MetaLearning Based Blood Glucose Predictor for Diabetic Smartphone App
2014
Bjørn Fredrik Nielsen
Articles in International Journals

Optimal Monodomain Approximations of the Bidomain Equations
Applied Mathematics and Computation, vol. 184, pp. 276—290, 2007 
An Order Optimal Solver for the Discretized Bidomain Equations
Numerical Linear Algebra with Applications, vol. 14, pp. 83—98, 2007 
A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
On the Possibility for Computing the Transmembrane Potential in the Heart With a One Shot Method; an Inverse Problem
Mathematical Biosciences, vol. 210, pp. 523—553, 2007 
A Note on the Efficiency of the Conjugate Gradient Method for a Class of TimeDependent Problems
Numerical Linear Algebra with Applications, vol. 14, pp. 459—467, 2007 
On the Use of the Resting Potential and Level Set Methods for Identifying Ischemic Heart Disease; an Inverse Problem
Journal of Computational Physics, vol. 220, pp. 772—790, 2007 
Penalty Methods for the Numerical Solution of American MultiAsset Option Problems
Journal of Computational and Applied Mathematics, vol. 222, pp. 3—16, 2008 
Preconditioning by Inverting the Laplacian; an Analysis of the Eigenvalues
IMA Journal of Numerical Analysis, vol. 29, pp. 24—42, 2009 
The Multigrid Algorithm Applied to a Degenerate Equation; a Convergence Analysis
Journal of Computational and Applied Mathematics, vol. 225, pp. 251—267, 2009 
A Computationally Efficient Method for Determining the Size and Location of Myocardial Ischemia
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 263—272, 2009 
Stability Analysis of the Inverse Transmembrane Potential Problem in Electrocardiography
Inverse Problems, vol. 26, 2010, [DOI] 
Efficient Preconditioners for Optimality Systems Arising in Connection With Inverse Problems
SIAM Journal on Control and Optimization, vol. 48, 2010, [DOI] 
Analysis of the Minimal Residual Method Applied to IllPosed Optimality Systems
SIAM Journal on Scientific Computing, vol. 35, pp. A785—A814, 2013 
Computing Ischemic Regions in the Heart With the Bidomain Model; First Steps Towards Validation
IEEE Transactions on Medical Imaging, vol. 32, pp. 1085—1096, 2013 
The Split Bregman Algorithm Applied to PDEConstrained Optimization Problems With Total Variation Regularization
Computational Optimization and Applications, vol. 63, pp. 1—26, 2016 
Illposed Point Neuron Models
The Journal of Mathematical Neuroscience, vol. 6, 2016, [DOI] 
PDEconstrained optimization with local control and boundary observations: Robust preconditioners
SIAM Journal on Scientific Computing, vol. 38, pp. A3461—A3491, 2016, [DOI] 
Robust preconditioners for PDEconstrained optimization with limited observations
BIT Numerical Mathematics, 2016
Books

Elements of Scientific Computing
Springer, 2010
Chapters in Books

Can ECG Recordings and Mathematics Tell the Condition of Your Heart?
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 287—319, 2009
Refereed Proceedings

Mathematical Based Imaging of Regional Ischemia
in World Congress on Medical Physics and Biomedical Engineering, 2009 
On the Performance of an Algebraic Multigrid Preconditioner for the Pressure Equation With Highly Discontinuous Media
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
On the Use of the Bidomain Model for Computing the Position and Size of Ischemic Regions; a Validation Study
in Computing in Cardiology, 2012 
Computing Ischemic Regions in the Heart: on the Use of Internal Electrodes
in Computing in Cardiology Conference (CinC), 2013 
Bidomain Simulations of Subendocardial Ischemia: the Forward and Inverse Problems
in Computing in Cardiology Conference, 2014
Talks

Inverse Solutions for Assesing Myocardial Ischemia
Talk at CBC, Seminar on Electrophysiology Modeling, Simula, 2007 
Can Inverse Problems Tell You the Condition of Your Heart?
Zurich Intelligencer; International Congress on Industrial and Applied Mathematics (ICIAM), SpringerVerlag, 2007 
PDE Methods for Identifying Ischemic Heart Disease
Presented at the 6th International Congress on Industrial and Applied Mathematics, 2007 
On the Use of Computer Simulations for Identifying Ischemic Heart Disease; Theoretical and Practical Aspects
Presented at the workshop Mathematics in Medicine/Biology, Centre of Mathematics for Applications, Department of Mathematics, University of Oslo, 2008 
Computer Simulations for Identifying Ischemic Heart Disease; a Validation Study
Presented at the BBGMedViz seminar at the Department of Mathematics, University of Bergen, 2008 
Theoretical and Practical Aspects of the Inverse Problem of Electrocardiography
Presented at Institut für Mathematik und Wissenschaftliches Rechnen, Karl Franzes Universität in Graz, Austria. Also presented at Institut für Numerische und Angewandte Mathematik, Westfälische WilhelmsUniversität Münster, Germany, 2008 
Theoretical and Practical Aspects of the Inverse Problem of Electrocardiography
Presented at the Fourth International Conference Inverse Problems: Modeling and Simulation, Turkey, 2008 
The Inverse Problem of Identifying Ischemic Heart Disease
Presented at the annual meeting of European Cardiac Simulation Group, Bologna, Italy, 2008 
Two Steps Towards Automating Efficient Solution of Inverse Problems
Invited Talk at the FEniCS 08 Workshop, March 57,Baton Rouge, Louisiana, 2008 
Modelling, Mathematical Properties and Validation of the Inverse Ischemia Problem
Presented at the Bidomain Workshop, Graz, Austria, 2009 
Preconditioning in Inverse Problems
Minisymposium at the Applied Inverse Problems conference, Vienna, Austria, 2009 
The Inverse Ischemia Problem; Mathematical Models and Validation
Presented at the Applied Inverse Problems conference, Vienna, Austria, 2009 
An Operator Theoretical Approach to Preconditioning Optimality Systems
Presented at the Applied Inverse Problems conference, Vienna, Austria, 2009 
Recent Contributions to the Inverse Problem of Electrocardiography
Minisymposium at the Applied Inverse Problems conference, Vienna, Austria, 2009 
On the Perfermance of an Algebraic Multigrid Preconditioner for the Pressure Equationwith Highly Discontinuous Media
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Theoretical and Practical Aspects of the Inverse Ischemia Problem
Presented at Karlsruhe Institute of Technology, Germany, 2010 
Efficient Preconditioning of Optimality Systems
Precond 11, 2011 
The Minimal Residual Method Applied to IllPosed Optimality Systems; Eigenvalues and Convergence Properties
Numerical Methods for Optimal Control and Inverse Problems workshop, Munich, Germany, 2012 
Efficient Preconditioning of Optimality Systems
EMG 2012, 2012 
PDEConstrained Optimization Problems With Box Constraints
International Conference on Preconditioning Techniques for Scientific and Industrial Applications, Oxford, 2013 
Computing Ischemic Regions in the Heart: on the Use of Internal Electrodes
Computing in Cardiology, 2013 
Observability of Ischemia and the Need for Patient Specific Geometrical Models in Inverse ECG
Computing in Cardiology, Zaragoza, Spain, 2013 
Efficient Preconditioning of Optimality Systems With NonSelfAdjoint State Operators
IFIP 2013, minisymposia Preconditioning for PDEConstrained Optimization, Linz, Austria, 2013
Posters

PDEConstrained Optimization Problems With Box Constraints; Effective Solution and Real World Applications
2013
Public Outreach

Funding: Deutscher Akademischer Austauschdienst Programme Des Projektbezogenen Personenaustauschs DAADppp Mobility Programme GermanyNorway
2012
Marcus Noack
Articles in International Journals

Fast Computation of Eikonal and Transport Equations on GPU Computer Architectures
Geophysics, vol. 80, 2015 
A TwoScale Method using a List of Active SubDomains for a Fully Parallelized Solution of Wave Equations
Journal of Computational Science, vol. 11, pp. 91—101, 2015 
Hybrid Genetic Deflated Newton Method for Global Optimisation
Journal of Computational and Applied Mathematics, 2017, [DOI]
Refereed Proceedings

Fast Sweeping vs. Fast Marching for Eikonal Methods of Electrophysiology  A Potential for Significantly More Efficient Computation?
in Cardiac Physiome Workshop, Auckland, New Zealand, 2015
Theses

New Theoretical and Numerical Methods for WaveMotion Modeling and Optimization
Ph.D. Thesis, The Faculty of Mathematics and Natural Sciences, University of Oslo, 2017
Talks

Fast and accurate Solutions of the Eikonal and Transport Equations
Amsterdam, 2014
Magne Nordaas
Articles in International Journals

Preconditioners for saddle point systems with trace constraints coupling 2D and 1D domains
SIAM Journal of Scientific Computing, vol. 38, 2016 
Robust preconditioners for PDEconstrained optimization with limited observations
BIT Numerical Mathematics, 2016 
Variational data assimilation for transient blood flow simulations
Accepted for publication in International Journal for Numerical Methods in Biomedical Engineering, 2017
Theses

Operator preconditioning for PDEconstrained optimisation and multiscale problems
Ph.D. Thesis, 2017
Talks

Robust Preconditioners for PDEConstrained Optimization With Limited Observations
European Multigrid Conference 2014, 2014 
PDEConstrained Optimisation in Hilbert Spaces
FEniCS'14 workshop, Paris, 2014 
Variational data assimilation for blood flow simulations
MS at SIAM UQ, Zurich, 2016
Kristian B. Oelgaard
Articles in International Journals

Automated Code Generation for Discontinuous Galerkin Methods
SIAM Journal on Scientific Computing, vol. 31, pp. 849—864, 2008
Conference Proceedings

Automated Computational Modelling for Solid Mechanics
in IUTAM Symposium on Theoretical, Modelling and Computational Aspects of Inelastic Media, 2008
Bernardo Lino "de Oliveira"
Articles in International Journals

Aproaching Cardiac Modeling Challenges to Computer Science With CellMlBased Web Tools
Future Generation Computer Systems, vol. 26, pp. 462—470, 2009 
Effects of Deformation on Transmural Dispersion of Repolarization Using in Silico Models of Human Left Ventricular Wedge
International Journal for Numerical Methods in Biomedical Engineering, vol. 29, pp. 1323—1337, 2013 
Increased Membrane Capacitance Is the Dominant Mechanism of StretchDependent Conduction Slowing in the Rabbit Heart: a Computational Study
Cellular and Molecular Bioengineering, vol. 8, pp. 237—246, 2015 
Simple T wave metrics may better predict early ischemia as compared to ST segment
IEEE Transactions on Biomedical Engineering, 2016, [DOI] 
A Biophysical Systems Approach to Identifying the Pathways of Acute and Chronic Doxorubicin Mitochondrial Cardiotoxicity
PLoS Computational Biology, vol. 12, 2016, [DOI] 
The opportunities and challenges for biophysical modelling of adverse and beneficial drug actions on the heart
Current Opinion in Systems Biology, 2017, [DOI]
Refereed Proceedings

A Two Dimensional Model of Coupled Electromechanics in Cardiac Tissue
in Proceedings of the World Congress on Medical Physics and Biomedical Engineering, 2009 
The Development of a New Computational Model for the Electromechanics of the Human Myocyte
in 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2010 
3D Heart Modeling With Cellular Automata, MassSpring System and CUDA
in Parallel computing technologies, 2013 
Computational models of doxorubicin mitochondria cardiotoxicity
in Journal of Pharmacological and Toxicological Methods, 2016 
Comparison of tetrahedral and hexahedral meshes for finite element simulation of cardiac electromechanics
in VII European Congress on Computational Methods in Applied Sciences and Engineering, 2016
Theses

Computational models of Cardiac Electromechanics
Ph.D. Thesis, University of Oslo, 2014
Talks

PatientSpecific Models of Cardiac ElectroMechanics
Federal University of Juiz de Fora, 2013 
Patient Specific Models of Cardiac ElectroMechanics
Seminar at Ecole des Mines, St Etienne, France, 2014 
Computational Models of ElectroMechanical Interactions in the Heart
Invited mini symposium presentation at the European Conference for Mathematics in Industry, Taormina, Italy., 2014 
Modelling the Mitochondrial Cardiotoxicity of Chemeotherapy
Federal University of Juiz de Fora, 2016 
A Computational Model for the Identification of Atrial Stunning Pathways
2017 EMI International Conference, 2017
Harald Osnes
Articles in International Journals

Experimental and Analytical Strength Analysis of DoubleLap Joints for Marine Applications
Composites Part B: Engineering, vol. 40, pp. 29—40, 2009 
Efficient Block Preconditioners for the Coupled Equations of Pressure and Deformation in Highly Discontinuous Media
International Journal for Numerical and Analytical Methods in Geomechanics, vol. 35, pp. 1466—1482, 2011, [DOI] 
Uncertainty Analysis of Ventricular Mechanics Using the Probabilistic Collocation Method
IEEE Transactions on Biomedical Engineering, vol. 59, pp. 2171—2179, 2012 
Improved Discretisation and Linearisation of Active Tension in Strongly Coupled Cardiac ElectroMechanics Simulations
Computer Methods in Biomechanics and Biomedical Engineering, vol. 17, pp. 604—15, 2014
Refereed Proceedings

Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow and Heat Transfer in Sedimentary Basins
in MekIT'07. Fourth National Conference on Computational Mechanics, 2007 
Uncertainty Analysis of the Mechanics of the Heart
in Proceedings of the Twenty Second Nordic Seminar on Computational Mechanics, 2009 
Numerical Simulation of LowVelocity Impact Loading of Polymeric Materials
in The 7th European LSDYNA Conference, 2009 
On the Performance of an Algebraic Multigrid Preconditioner for the Pressure Equation With Highly Discontinuous Media
in MekIT'09. Fifth national conference on Computational Mechanics, 2009
Technical Reports

MohrCoulomb Stress in the Code for Deformation and Heat Flow in Sedimentary Basins
Simula Research Laboratory, 2007 
PhD: Simulation of Deformation and Heat Flow in Sedimentary Basins
Simula, 2007
Talks

Parallelisation and Numerical Performance of a 3D Model for Coupled Deformation, Fluid Flow, and Heat Transport in Porous Geological Formations
Talk at the Fourth National Conference on Computational Mechanics (MekIT'07), Trondheim, Norway, 2007 
Computer Modeling of Cardiac ElectroMechanics  Models and Numerical Methods
Talk at Cardiac Modeling seminar, Simula Research Laboratory, 2009 
Simulation of Strongly Coupled ElectroMechanics in an Infarcted Left Ventricle
Invited talk at the workshop Bidomain 2009, University of Graz, 2009 
On the Perfermance of an Algebraic Multigrid Preconditioner for the Pressure Equationwith Highly Discontinuous Media
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009
Pearu Peterson
Talks

The G3 F2PY for Connection Python and FORTRAN 90 Programs
Talk at Workshop on Software Issues in Computational Science and Engineering, Uppsala, Sweden, 2007
Sune Hansborg Pettersen
Articles in International Journals

Subject Specific Finite Element Analysis of Implant Stability for a Cementless Femoral Stem
Clinical Biomechanics, vol. 24, pp. 480—487, 2009, [DOI] 
Subject Specific Finite Element Analysis of Stress Shielding Around a Cementless Femoral Stem
Clinical Biomechanics, vol. 24, pp. 196—202, 2009, [DOI]
Refereed Proceedings

Subject Specific Finite Element Analysis of Callus Distraction  a Preliminary Study
in Fifth national conference on Computational Mechanics (MekIT´09), 2009
Theses

Subject Specific Finite Element Analysis of Bone for Evaluation of the Healing of a Leg Lengthening and Evaluation of Femoral Stem Design
Ph.D. Thesis, Norwegian University of Science and Technology, 2009
Talks

Subject Specific Finite Element Analysis of a Callus Distraction  a Preliminary Study
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009
Simone Pezzuto
Articles in International Journals

Active contraction of the cardiac ventricle and distortion of the microstructural architecture
International Journal for Numerical Methods in Biomedical Engineering, vol. 30, pp. 1578—1596, 2014 
Verification of cardiac mechanics software: benchmark problems and solutions for testing active and passive material behaviour
Proceedings of the Royal Society A, vol. 471, 2015 
Highorder finite element methods for cardiac monodomain simulations
Frontiers in Physiology, 2015, [DOI] 
Spacediscretization error analysis and stabilization schemes for conduction velocity in cardiac electrophysiology
International Journal for Numerical Methods in Biomedical Engineering, 2016, [DOI]
Chapters in Books

Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Lecture Notes in Computer Science, Springer International Publishing, pp. 93–104, 2014
Refereed Proceedings

Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Statistical Atlases and Computational Models of the HeartImaging and Modelling Challenges, 2015
Talks

Computational Models of ElectroMechanical Interactions in the Heart
Invited mini symposium presentation at the European Conference for Mathematics in Industry, Taormina, Italy., 2014
Eleonora Piersanti
Talks

Modelling and simulation of viscous and poroelastic fluid flow in the brain
FEniCS16, Simula Research Laboratory, 2016 
On accurate and efficient simulations of multiplenetwork poroelastic modelling with applications to interstitial fluid flow in the human brain
WCCM XII & APCOM VI, Seoul, 2016 
Developing simulation technology to solve biomedical problems: analysis, implementation and applications
University of Uppsala, 2016 
Modelling pulsatility in the context of NormalPressure Hydrocephalus via multiplenetwork poroelasticity
5th International Conference on Computational and Mathematical Biomedical Engineering, Pittsburgh, US, 2017
Posters

The waterscape of the brain
2016
Giulia Pizzichelli
Articles in International Journals

A numerical investigation of intrathecal drug and gene vector dispersion within the cervical subarachnoid space
Plos One, 2017, [DOI]
Hans Ekkehard Plesser
Articles in International Journals

Towards Reproducible Descriptions of Neuronal Network Models
PLoS Computational Biology, vol. 5, 2009, [DOI] 
Visualizing Neuronal Network Connectivity With Connectivity Pattern Tables
Frontiers in Neuroinformatics, vol. 3, pp. 1—15, 2010, [DOI]
Talks

Simulation and Visualization of the Early Early Visual System Using PyNEST and ConnPlotter
Talk at the Kongsberg Vision Meeting, The Norwegian Association of Optometrists, 2009
Victorien Emile Prot
Articles in International Journals

Transversely Isotropic Membrane Shells With Application to Mitral Valve Mechanics. Constitutive Modelling and Finite Element Implementation
International Journal for Numerical Methods in Engineering, vol. 71, pp. 987—1008, 2007, [DOI] 
Finite Element Analysis of the Mitral Apparatus: Annulus Shape Effect and Chordal Force Distribution
Biomechanics and Modeling in Mechanobiology, vol. 8, pp. 43—55, 2009 
Nonlinear Solid Finite Element Analysis of Mitral Valves With Heterogeneous Leaflet Layers
Computational Mechanics, vol. 43, pp. 353—368, 2009 
Modeling Active Muscle Contraction in Mitral Valve Leaflets During Systole: a First Approach
Biomechanics and Modeling in Mechanobiology, vol. 10, pp. 11—26, 2010, [DOI] 
On Modelling and Analysis of Healthy and Pathological Human Mitral Valves: Two Case Studies
Journal of the Mechanical Behavior of Biomedical Materials, vol. 3, pp. 167—177, 2010, [DOI] 
Contributions of prestrains, hyperelasticity, and muscle fiber activation on mitral valve systolic performance
International Journal for Numerical Methods in Biomedical Engineering, 2016, [DOI] 
Contributions of prestrains, hyperelasticity, and muscle fiber activation on mitral valve systolic performance
International Journal for Numerical Methods in Biomedical Engineering, 2017 
Nanoindentation and finite element modelling of chitosan–alginate multilayer coated hydrogels
Soft Matter, 2017
Refereed Proceedings

On Material Modelling of Umbilical Vein
in Fifth National Conference on Computational Mechanics (MekIT´09), 2009 
Initial Study on Material Modeling of Umbilical Veins in Fetal Sheep
in 6th World Congress of Biomechanics, 2010 
FSI Simulation of the Mitral Valve With Contact and Active Anisotropic Material Models
in 6th World Congress of Biomechanics, 2010 
A Biomechanical Model for Human Umbilical Veins and Wharton's Jelly
in 8th International Conference on Computational Fluid Dynamics in the Oil & Gas, Metallurgical and Process Industries, 2011 
Effects of an Orthogonal Contractile System in the Anterior Leaflet on the Systolic Mitral Valve Response: a Nonlinear Finite Element Study
in 10th Internation Symposium, Computational Methods in Biomechanics and Biomedical Engineering, 2012
Conference Proceedings

Alternative Elasticity Modeling Approaches for Mitral Valve Analysis: Consequences for Stress and Deformation Prediction
in Proceeding of the 22nd Nordic Seminar on Computational Mechanics, 2009
Theses

Modelling and Numerical Analysis of the Porcine and Human Mitral Apparatus
Ph.D. Thesis, Norwegian University of Science and Technology, 2008
Talks

Solid Finite Element Analysis of the Mitral Valve
Talk at CBC Seminar on Biomechanics, Trondheim, 2007 
Effects on Connective Tissue Pathologies on Mitral Valve Response
Talk at the Conference on Modeling of heterogeneous materials with application in construction and biomedical engineering, Prague, 2007 
Solid Versus Membrane Finite Elements in Analysis of the Mitral Valve: a Case Study
Talk at the 6th International Conference on Computation of Shell & Spatial Structures, 2008 
Mitral Valve Finite Element Analysis Using Human Uniaxial Tensile Data
Talk at Talk at 8th World Congress on Computational Mechanics, Venice, 2008 
Alternative Elasticity Modeling Approaches for Mitral Valve Analysis: Consequences for Stress and Deformation Prediction
Talk at the 22nd Nordic seminar on Computational Mechanics, Aalborg, Denmark, October 2223 2009, 2009 
Finite Element Analysis of the Mitral Valve With Active Muscle Fibres
SIAM CSE Reno, Nevada, USA, 2011 
Effects of an Orthogonal Contractile System in the Anterior Leaflet on the Systolic Mitral Valve Response: a Nonlinear Finite Element Study
10th International Symposium on Biomechanics and Biomedical Engineering, Berlin, 2012 
Contributions of residual strains, hyperelasticity models, and muscle fiber activation on mitral valve systolic performance
9. European Solid Mechanics Conference, Madrid, 2015, 2015
Harikrishnan Radhakrishnan
Refereed Proceedings

Modeling Particle Deposition in the Human Lungs
in 6th GRACM International Congress on Computational Mechanics, 2008 
Using LES to Model Turbulent Particle Transport in Lungs
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
CFD Modeling of Turbulent Flow and Particle Deposition in Human Lungs
in Conference Proceedings of the International Conference of IEEE Engineering in Medicine and Biology Society (2009), 2009 
Using LES to Model Turbulent Particle Transport in Human Lungs
in The 6th International Symposium on Turbulence and Shear Flow Phenomena (TSFP6), 2009 
Numerical Modeling of Turbulent Airflow and Particle Deposition in a Bifurcating Airway Model
in World Congress on Medical Physics and Biomedical Engineering, September 7  12, 2009, Munich, Germany, 2010
Benjamin RaganKelley
Talks

Diffing and Merging Jupyter Notebooks with nbdime
SciPy 2016, 2016 
nbdime: diffing and merging notebooks
JupyterDay Orsay, 2016 
nbdime: Notebook Diffing and Merging
EuroSciPy 2016, Erlangen, Germany, 2016 
3D visualization in Jupyter Notebooks
Luxembourg, 2017 
Notebooks in Version Control  diffing and merging with nbdime
Computational Mathematics with Jupyter workshop, Edinburgh, Scotland, 2017
S. Rahman
Articles in International Journals

A Finite Element Method for Modelling Electromechanical Wave Propagation in Anisotropic Piezoelectric Media
Communications in Computational Physics, vol. 2, pp. 271—292, 2007 
PulseInduced Acoustoelectric Vibrations in SurfaceGated GaAsBased Quantum Devices
Physical Review B: Condensed Matter and Materials Physics, vol. 75, 2007
Bjørn Anders Petterson Reif
Articles in International Journals

Tracking Airborne Legionella and Legionella Pneumophila at a Biological Treatment Plant
Enviromental Science & Technology, vol. 42, pp. 7360—7367, 2008, [DOI] 
Towards Sensitizing the Nonlinear v^2f Model to Turbulence Structures
Flow, Turbulence and Combustion, vol. 83, pp. 185—203, 2009, [DOI] 
Variational Multiscale Turbulence Modelling in a High Order Spectral Element Method
Journal of Computational Physics, vol. 228, pp. 7333—7356, 2009, [DOI] 
Assessment of the Finite Volume Method Applied to the V^2  F Model
International Journal for Numerical Methods in Fluids, vol. 63, pp. 495—516, 2010, [DOI] 
Consequence Assessment of Indoor Dispersion of SarinA Hypothetical Scenario
Journal of Hazardous Materials, vol. 176, pp. 381—388, 2010, [DOI] 
Dispersion of LegionellaContaining Aerosols From a Biological Treatment Plant
Frontiers in Bioscience, vol. E3, pp. 1300—1309, 2011 
Direct Numerical Simulation of Transitional Flow in a PatientSpecific Intracranial Aneurysm
Journal of Biomechanics, vol. 44, pp. 2826—2832, 2011, [DOI] 
Modeling the Evaporation From a Thin Liquid Surface Beneath a Turbulent Boundary Layer
International Journal of Thermal Sciences, vol. 50, pp. 2311—2317, 2011, [DOI] 
Numerical Simulations of the Pulsating Flow of Cerebrospinal Fluid Flow in the Cervical Spinal Canal of a Chiari Patient
Journal of Biomechanics, vol. 47, pp. 1082—90, 2014
Books

Statistical Theory and Modeling for Turbulent Flows
Wiley, 2010
Refereed Proceedings

Modelling Adverse PressureGradient Boundary Layers Using the Nonlinear V2f Model in Combinationwith a Structure Based Model
in 7th international ERCOFTAC Symposium on Engineering Turbulence Modeling and Measurements, 2008 
Consequence Management Challenges After Indoor Dispersion of a Toxic Chemical
in 7th Symposium on chemical, biological, nuclear and radiological threats, 2009 
Tracking Pathogenic Biological Agents in Air  a Case Study of the Outbreak of Legionellosis in Norway
in 7th Symposium on chemical, biological, nuclear and radiological threats, 2009 
Numerical Modeling of Aerosol Dispersion Inside a Rotating Aerosol Chamber
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
Predicting Particle Deposition in the Human Airways With RANS
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
Proper Orthogonal Decomposition of Velocity and Scalar Fields in Shear Generated Turbulence
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
Large Eddy Simulations of the Evaporation From a Liquid Pool Beneath a Turbulent Air Flow
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
CFD Simulations of the Evaporation From a Liquid Pool in a Turbulent Flow
in 7th Symposium on chemical, biological, nuclear and radiological threats, 2009 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Unsteady RANS Modelling of Pollutant Dispersion in an Idealized Urban Area
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
Modeling the Dispersion and Transport of Aerosols Emitted From Industrial Facility During 2005 and 2008 Outbreaks of Legionnaire's Disease in Norway
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
Large Eddy Simulations of the Release of Liquified Chlorine From a Pressurized Tank Into the Atmosphere
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
On the Complexity of Stationary Flow in PatientSpecific Aneurysms
in MekIT'11 Sixth national conference on Computational Mechanics, 2011 
Investigations of Transistional Flows Using Image Based Hemodynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
Flow Patterns and Aerosol Dispersion Inside an Aerosol Test Chamber
in Sixth national conference on Computational Mechanics (MekIT'11), 2011
Talks

Turbulens  Det Siste Uløste Problemet I Klassisk Fysikk
Talk at Popular Mathematics (POPMAT), University of Oslo, 2008 
Numerical Modeling of Aerosol Dispersion Inside a Rotating Aerosol Chamber
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Predicting Particle Deposition in the Human Airways With RANS
Talk at Mekit'09: Fifth National Conference on Computational Mechanics, 2009 
Proper Orthogonal Decomposition of Velocity and Scalar Fields in Shear Generated Turbulence
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Large Eddy Simulations of the Evaporation From a Liquid Pool Beneath a Turbulent Air Flow
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Implementing a KE Turbulence Model in the FEniCS Finite Element Programming Environment
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Unsteady RANS Modelling of Pollutant Dispersion in an Idealized Urban Area
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
The Finite Element Library FEniCS and Simulation of Blood Flow in Cerebral Aneurysms
Talk at CSB Seminar, University of Stuttgart, 2011 
Computational Cerebral Hemodynamics
The Norwegian Defence Research Establishment, 2011 
Simulation Methodology for Cerebral Blood Flow
Biomedical Simulation Lab, Institute of Biomaterials and Biomedical Engineering at the University of Toronto, 2011 
Direct Numerical Simulation of Transitional Flow in PatientSpecific Intracranial Aneurysms
ASME 2011 Summer Bioengineering Conference, 2011 
'Turbulence' in Cerebral Aneurysms
CBC Workshop on Biomechanics, 1718 November, 2011 
On the Assumption of Laminar Flow of CSF in Chiari Patients
international Chiari Research Group, 2014
Johannes Ring
Articles in International Journals

The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015
Posters

Figshare
AGU, 2014 
FEniCS: Sustainable Software Development Practices
2017
Marie E. Rognes
Articles in International Journals

Efficient Assembly of H(div) and H(curl) Conforming Finite Elements
SIAM Journal on Scientific Computing, vol. 36, pp. 4130—4151, 2009 
Modelling of and Mixed Finite Element Methods for Gels in Biomedical Applications
SIAM Journal on Applied Mathematics, vol. 70, pp. 1305—1329, 2009, [DOI] 
Stability of Lagrange Elements for the Mixed Laplacian
Calcolo, vol. 46, pp. 245—260, 2009, [DOI] 
Mixed Finite Element Methods for Viscoelasticity With Weak Symmetry
Mathematical Models and Methods in Applied Sciences (M3AS), vol. 20, pp. 955—985, 2010, [DOI] 
An Analysis of the Shock Strength Needed to Achieve Defibrillation in a Simplified Mathematical Model of Cardiac Tissue
International Journal of Numerical Analysis and Modeling, vol. 9, pp. 644—657, 2012 
Automated Derivation of the Adjoint of HighLevel Transient Finite Element Programs
SIAM Journal on Scientific Computing, vol. 35, pp. 369—393, 2013 
Automating the Solution of PDEs on the Sphere and Other Manifolds in FEniCS 1.2
Geoscientific Model Development, pp. 2099—2119, 2013 
Automated GoalOriented Error Control I: Stationary Variational Problems
SIAM Journal on Scientific Computing, vol. 35, pp. 173—193, 2013 
Benchmarking FEniCS for Mantle Convection Simulations
Computers & Geosciences, vol. 50, pp. 95—105, 2013 
Unified Form Language: a DomainSpecific Language for Weak Formulations of Partial Differential Equations
ACM Transactions on Mathematical Software, vol. 40, 2014 
A Stabilized Nitsche Fictitious Domain Method for the Stokes Problem
Journal of Scientific Computing, vol. 61, pp. 604—628, 2014, [DOI] 
A Stabilized Nitsche Overlapping Mesh Method for the Stokes Problem
Numerische Mathematik, vol. 128, pp. 73—101, 2014, [DOI] 
A Nitschebased Cut Finite Element Method for a FluidStructure Interaction Problem
Communications in Applied Mathematics and Computational Science, vol. 10, pp. 97—120, 2015, [DOI] 
The FEniCS Project Version 1.5
Archive of Numerical Software, vol. 3, 2015 
Adjoint MultiStart Based Estimation of Cardiac Hyperelastic Material Parameters using Shear Data
Biomechanics and Modeling in Mechanobiology, pp. 1—13, 2016 
High resolution data assimilation of cardiac mechanics
International journal for numerical methods in biomedical engineering, 2017, [DOI] 
cbcbeat: an adjointenabled framework for computational cardiac electrophysiology
Journal of Open Source Software, 2017, [DOI] 
Adjointbased estimation of cardiac activation times
International Journal for Numerical Methods in Biomedical Engineering, 2017
Chapters in Books

Dynamic Simulations of Convection in the Earth's Mantle
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 587—602, 2012 
Common and Unusual Finite Elements
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 91—116, 2012 
Automated Testing of Saddle Point Stability Conditions
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 655—670, 2012 
FFC: the FEniCS Form Compiler
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 223—234, 2012 
Astrocytic Ion Dynamics: Implications for Potassium Buffering and Liquid Flow
in Computational Geoscience, Springer, 2017
Refereed Proceedings

Exploring Automated Adaptivity and Error Control
in AIP Conference Proceedings, 2010 
A Newton Method for FluidStructure Interaction Using Full Jacobians Based on Automatic Form Differentiation
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Automatically Generated Solvers for Variational Formulations of TimeDependent Partial Differential Equations
in 6th European Congress on Computational Methods in Applied Sciences and Engineering, ECCOMAS 2012, 2012 
Personalized Cardiac Mechanical Model using a High Resolution Contraction Field
in VPH16 Translating VPH to the Clinic, 2016
Conference Proceedings

Least Squares Fitting of a Cardiac Hyperelasticity Model Using an Automatically Derived Adjoint Equation
in Proceedings of NSCM27: the 27th Nordic Seminar on Computational Mechanics, 2014 
Personalization of a Cardiac Compuational Model using Clinical Measurements
in 28th Nordic Seminar on Computational Mechanics, 2015 
Optimization of a Spatially Varying Cardiac Contraction parameter using the Adjoint Method
in FEniCS'16, 2016
Theses

Mixed Finite Element Methods With Applications to Viscoelasticity and Gels
Ph.D. Thesis, University of Oslo, 2009
Talks

Mixed Finite Element Methods and Applications to Deformations of ElasticLike Materials
Centre of Mathematics for Applications, 2007 
The Free Energy, the Boundary Value Problem and Then What?
Ferroelectric phenomena in liquid crystals, Kent State University, 2007 
Compiling H(div) and H(curl) Variational Forms
Automating the development of scientific computing software, Louisiana State University, 2008 
Mixed Finite Elements for Viscoelasticity
Invited talk at the Computer Science department, University of Chicago, 2008 
Introduction to Finite Elements: Saddle Point Problems
Ferroelectric phenomena in soft matter systems, American Institute of Mathematics, 2008 
Automated Error Control. Current Status and Future Ambitions
Simula seminar, 2009 
Efficient Assembly of H(div) and H(curl) Conforming Variational Forms
ICOSAHOM, Norwegian University of Science and Technology, 2009 
Mixed Finite Element Methods for Linear Viscoelasticity
Compatible and innovative discretizations for PDEs. Algorithms, analysis and implementation. Norwegian Academy of Science and Letters, 2009 
Automated GoalOriented Error Control for Stationary Variational Problems
Talk at FEniCS'10, KTH Royal Institute of Technology, Stockholm, 2010 
Automated GoalOriented Error Control for Stationary Variational Problems
Presentation at the European Finite Element Fair 2010, University of Warwick, 2010 
A Framework for Automated GoalOriented Error Control
Talk at BIT 50  Trends in Numerical Computing, 2010 
Automated GoalOriented Error Control
ChinaNorwaySweden Workshop on Computational Mathematics, 2010 
Automated GoalOriented Error Control With Applications to Fluid Flow
Talk at CBC Workshop on Cerebral Blood Flow and Stroke  Clinical, Experimental and Mathematical Models and Problems, 2010 
Automated GoalOriented Error Control With Applications to Nonlinear Elasticity
Talk at DSPDEs 2010  Emerging Topics in Dynamical Systems and Partial Differential Equations, Barcelona, 2010 
Automated GoalOriented Error Control
8th International Conference of Numerical Analysis and Applied Mathematics (ICNAAM), Rhodes, Greece, September 1925, 2010 
FEniCS After 1.0: Current Trends at CBC@Simula
Talk at FEniCS'11 / Red Raider Minisymposium 2011, Texas Tech University, Lubbock, November 2011, 2011 
More Or Less Shocking: Using Energy Estimates to Answer Scientific Questions
Talk at Biocomp Seminar, Simula Research Laboratory, October 2011, 2011 
Automated GoalOriented Error Control
Talk at CBC workshop on Biomechanics, November 2011, 2011 
Error Control and Adaptivity for the NonExpert
Talk at CBC Workshop on Biomedical Modeling, 2011 
Automated GoalOriented Error Control a Posteriori Error Estimation and Adaptivity in Finite Element Exterior Calculus
Talk at USNCCM '11, Minneapolis, 2011 
Bringing Error Control to the NonExpert  Automation of a Posteriori Error Estimation
Talk at CBC Workshop on Multiscale Problems and Methods, 2011 
The FEniCS Project
Talk at Imperial College, 2011 
GoalOriented Error Control Automated!
Talk at SIAM CSE Reno, Nevada, USA, 2011 
FEniCS: the Next Generation PDE Software
Talk at CBC Workshop on Biomedical Modeling, 2011 
Techniques for Automated Treatment of Variational Forms Over Arbitrary Dimension Tensor Product Finite Elements
CBC Seminar series, 2012 
Automated FEniCS Frameworks for Adjoint Models and Their Applications
KAUST, 2012 
The FEniCS Project: a Short Course
KAUST, 2012 
Automatically Generated Solvers for Variational Formulations of TimeDependent Partial Differential Equations
ECCOMAS, 2012 
The FEniCS Project: a Tutorial
Imperial College, 2012 
The FEniCS Project: a Modern Framework for the Automated Solution of PDEs by FEM
Computational Geoscience Workshop, 2012 
FEniCS on a Moebius Strip
CBC seminar series, 2013 
Solving PDEs Over Manifolds With FEniCS
FEniCS'13, Cambridge, 2013 
An AdjointEnabled Simulation Framework for Cardiac Electrophysiology
CBC/CCI workshop Advancing numerical technologies in the cardiac domain, 2013 
Adaptive Finite Elements: Practice and Implementation
Centre for Mathematics for Applications, University of Oslo, 2014 
An AdjointEnabled Simulation Framework for Cardiac Electrophysiology
FEniCS'14 Workshop, University of Chicago center in Paris, France, 2014 
In Silico Physiological Flows
Seminar in connection with Villani visit at Simula Research Laboratory, Fornebu, 2014 
HighLevel Advanced Abstractions and Techniques in Finite Element Software
CBC Workshop on Computational Modeling with Applications in Biomedicine and Geophysics at Simula Research Laboratory, 2014 
Automated GoalOriented Error Control and Adaptivity
RCN site visit to the CBC, Simula Research Laboratory, Fornebu, 2014 
An AdjointEnabled Simulation Framework for Cardiac Electrophysiology
CBC and CCI Workshop on Cardiac Modelling at Simula Research Laboratory, Fornebu, 2014 
Perspectives on the Current State of the Art of Computational Modelling of Fluid Flow in the Brain Parenchyma
CBC and CINPLA Workshop on Modelling Liquid Transport in the Brain, Simula Research Laboratory, Fornebu, 2014 
Effect of Spinal Cord Viscoelasticity on Its Response to CSF Pressure Waves: a Computational Study
ASNR 53rd Annual Meeting & The Foundation of the ASNR Symposium 2015, April 25 – 30, Chicago, Illinois, 2015 
Biomedical Computing at Simula Research Laboratory
UNICAT Kickoff meeting, Porto, Portugal (Invited), 2015 
Introduction to dolfinadjoint and its applications in cardiac electrophysiology
2015 Summer School in Computational Physiology: Models, Tools, and Techniques for Cardiac Applications, 2015 
A 2day training course in FEniCS and dolfinadjoint
NGCM Summer Academy, University of Southampton, 2015 
The FEniCS and Dolfinadjoint Projects
NGCM Summer Academy, University of Southampton, 2015 
Towards a Unified Framework for Automated a Posteriori Error Estimation and Adaptivity in SpaceTime
SIAM CSE, Salt Lake City, USA, 2015 
NonManifold Manifold Simulations Using FEniCS
FEniCS '15, Imperial College London, UK, 2015 
Identifying the Parameters of the Heart: Variational Data Assimilation in Cardiac Mechanics Using DolfinAdjoint
FEniCS '15, Imperial College London, UK, 2015 
New simulation technology driven by medical challenges: the Biomedical Computing Department @ Simula
Oslo, Simula Research Laboratory, 2015 
The Numerical Waterscape of the Brain
NorwayRussia workshop on Biot's equations and error estimation, Voss, Norway, 2016 
The FEniCS and Dolfinadjoint Projects
NGCM Summer Academy, University of Southampton, 2016 
A 2day training course in FEniCS and dolfinadjoint
NGCM Summer Academy, University of Southampton, 2016 
The FEniCS and dolfinadjoint projects
Higherorder DG methods and finite element software for modern architectures, University of Bath, UK, 2016 
Modelling and simulation of viscous and poroelastic fluid flow in the brain
FEniCS16, Simula Research Laboratory, 2016 
On accurate and efficient simulations of multiplenetwork poroelastic modelling with applications to interstitial fluid flow in the human brain
WCCM XII & APCOM VI, Seoul, 2016 
Developing simulation technology to solve biomedical problems: analysis, implementation and applications
University of Uppsala, 2016 
Simulating Cerebrospinal Fluid Flow and Spinal Cord Movement Associated with Syringomyelia
Chalmers Institute of Technology, 2016 
Highlevel abstractions, algorithms and applications in forward and inverse finite element solution of PDEs
Nordic Seminar on Computational Mechanics, Chalmers University of Technology, Sweden, 2016 
Waterscales: mathematical and computational foundations for modelling cerebral fluid flow
OBCESimula Workshop, Simula Research Laboratory, Norway, 2016 
Time scales of mathematics: from basic research to societal application
RCN Workshop on the Importance of Mathematics for Value Creation, Lysaker, Norway, 2016 
Impact of high abstraction/high performance finite element software in biomedical computing
24th International Conference on Domain Decomposition Methods, 2017 
The PDEs of our hearts and minds
Women in PDEs, Karlsruhe, Germany, 2017 
Modelling pulsatility in the context of NormalPressure Hydrocephalus via multiplenetwork poroelasticity
5th International Conference on Computational and Mathematical Biomedical Engineering, Pittsburgh, US, 2017 
Accurate numerical modelling of small collections of cardiac cells
FEniCS'17, Luxembourg City, Luxembourg, 2017
Posters

Dolfinadjoint: Automatic adjoint models for FEniCS
The 8th International Congress on Industrial and Applied Mathematics, 2015 
Dolfinadjoint, automated adjoint models for FEniCS
2015 
Patient Specific Modeling of Cardiac Mechanics using the Active Strain Formulation
Geilo Winter School, 2016 
The waterscape of the brain
2016 
FEniCS: Sustainable Software Development Practices
2017
Public Outreach

Mathematics that cures us
2017
Gabriela Rutkowska
Articles in International Journals

PatientSpecific 3D Simulation of Cyclic CSF Flow at the CranioCervical Region
American Journal of Neuroradiology, vol. 33, pp. 1756—1762, 2012 
Estimation of CSF Flow Resistance in the Upper Cervical Spine
The Neuroradiology Journal, vol. 3, pp. 49—53, 2013
Talks

Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011
Tomas Syrstad Ruud
Articles in International Journals

Optimal Monodomain Approximations of the Bidomain Equations
Applied Mathematics and Computation, vol. 184, pp. 276—290, 2007 
A Computationally Efficient Method for Determining the Size and Location of Myocardial Ischemia
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 263—272, 2009
Theses

Contributions to Simplifying Bidomain Simulations
Ph.D. Thesis, Department of Informatics, University of Oslo, 2009
Achim Schroll
Articles in International Journals

On the Accuracy of Operator Splitting As Applied to Discretized Reaction Diffusion Systems
International Journal of Computer Mathematics, vol. 84, pp. 871—885, 2007
Chapters in Books

Automatic Calibration of Depositional Models
in Automated Scientific Computing, Edited by , Springer, 2010
Talks

WellBased Calibration of Geological Models
Mathematisches Forschungsinstitut Oberwolfach, 2008 
Automatic Calibration of Depositional Models: an Inverse Problems Approach
Talk at 33rd International Geological Congress, Oslo, 2008 
On Computational Mathematical Modeling
Colloquium, The University of Southern Danmark, 2008 
Mathematical Modeling
SDU Science Day, 2009 
Scientific Computing  the (he)art of Modern Sciences
Forskningens Dag, SDU, 2010 
Self Calibrating, Adaptive Models in the Geo and Life Sciences
Inverse Problems Workshop, 2011 
On Automated Computational Modeling in the Geo and Life Sciences
Numerical methods for hyperbolic equations Recent trends and future directions (SAMHYP), ETH Zürich, Switzerland, 2011 
High Resolution FV Methods for Stochastic Balance Laws
Intl. Conf. High Performance Scientific Computing, Hanoi, Vietnam, 2012 
An Inverse Approach to Stratigraphic Modelling
34th International Geological Congress, Brisbane, Australia, 2012 
A DEMOSTRAT RoudTrip: the Forward and Inverse Model
Geilo Winter School, 2012 
Strong Stability Preserving Stochastic Runge Kutta Methods
Geilo Winter School, 2012
Kristoffer Selim
Articles in International Journals

An Adaptive Finite Element Splitting Method for the Incompressible NavierStokes Equations
Computer Methods in Applied Mechanics and Engineering, vol. 209212, pp. 54—65, 2012, [DOI]
Chapters in Books

An Adaptive Finite Element Solver for Fluidstructure Interaction Problems
in Automated Solution of Differential Equations by the Finite Element Method, Edited by , Springer, pp. 554—572, 2012
Refereed Proceedings

Simulating Heart Valve Dynamics in FEniCS
in MekIT´09. Fifth National Conference on Computational Mechanics, 2009
Theses

Adaptive Finite Element Methods for FluidStructure Interaction and Incompressible Flow
Ph.D. Thesis, University of Oslo, 2011
Talks

Simulating the Heart Valve Dynamics in FEniCS
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
An Adaptive Finite Element Method for Fluid StructureInteraction Problems
Talk at FEniCS'10, 2010 
A Posteriori Error Analysis of Adaptive Finite Element Methods for FluidStructure Interaction
AC/DC seminar series, 2010
Dag Sverre Seljebotn
Articles in International Journals

A Multilevel Solver for Gaussian Constrained CMB Realizations
The Astrophysical Journal Supplement Series, vol. 210, 2014
Technical Reports

A Multilevel Solver for Gaussian Constrained CMB Realizations
2013
Posters

Figshare
AGU, 2014
Malin Siklosi
Refereed Proceedings

Multiscale Modeling of the Acoustic Properties of Lung Parenchyma
in Modelling of the Respiratory System Biomechanical, Computational and Mathematical Aspects, 2008
Talks

Multiscale Modeling of the Acoustic Properties Og Lung Parenchyma
Talk at CBC Workshop on Biomedical Computing, Simula, 2007
Bjørn H. Skallerud
Articles in International Journals

Transversely Isotropic Membrane Shells With Application to Mitral Valve Mechanics. Constitutive Modelling and Finite Element Implementation
International Journal for Numerical Methods in Engineering, vol. 71, pp. 987—1008, 2007, [DOI] 
On the Applicability of Bovine Morsellized CorticoCancellous Bone As a Substitute for Human Morsellized CorticoCancellous Bone for in Vitro Mechanical Testing
Journal of Biomechanics, vol. 41, pp. 3469—3474, 2008, [DOI] 
TwoParameter Fracture Mechanics and Circumferential Crack Growth in Surface Cracked Pipelines Using LineSpring Elements
Engineering Fracture Mechanics, vol. 75, pp. 17—30, 2008, [DOI] 
Ultimate Fracture Capacity of Pressurized Pipes With Defects  Comparisons of Large Scale Testing and Numerical Simulations
Engineering Fracture Mechanics, vol. 75, pp. 2352—2366, 2008, [DOI] 
Constitutive Models for Constrained Compression of Unimpacted and Impacted Human Morselized Bone Grafts
Journal of Biomechanical Engineering, vol. 130, pp. 61014, 2008, [DOI] 
The Fluid Phase of Morsellized Bone: Characterization of Viscosity and Chemical Composition
Journal of the Mechanical Behavior of Biomedical Materials, vol. 1, pp. 199—205, 2008, [DOI] 
Surface Roughness Characterization for Fatigue Life Predictions Using Finite Element Analysis
International Journal of Fatigue, vol. 30, pp. 2200—2209, 2008, [DOI] 
Fracture of AnodicBonded SiliconThin Film GlassSilicon Triple Stacks
Engineering Fracture Mechanics, vol. 75, pp. 1064—1082, 2008, [DOI] 
The Modified Cam Clay Model for Constrained Compression of Human Morsellised Bone: Effects of Porosity on the Mechanical Behaviour
Journal of the Mechanical Behavior of Biomedical Materials, vol. 2, pp. 43—50, 2009, [DOI] 
Evaluation of Fracture Mechanics Parameters for Free Edges in MultiLayered Structures With Weak Singularities
International Journal of Solids and Structures, vol. 46, pp. 1134—1148, 2009, [DOI] 
Finite Element Analysis of the Mitral Apparatus: Annulus Shape Effect and Chordal Force Distribution
Biomechanics and Modeling in Mechanobiology, vol. 8, pp. 43—55, 2009 
Comments on the Evaluation of the Stress Intensity Factor for a General ReEntrant Corner in Anisotropic BiMaterials
Engineering Fracture Mechanics, vol. 76, pp. 1373—1379, 2009, [DOI] 
Subject Specific Finite Element Analysis of Implant Stability for a Cementless Femoral Stem
Clinical Biomechanics, vol. 24, pp. 480—487, 2009, [DOI] 
Subject Specific Finite Element Analysis of Stress Shielding Around a Cementless Femoral Stem
Clinical Biomechanics, vol. 24, pp. 196—202, 2009, [DOI] 
Cyclic Plasticity Modelling for ANDES Thin Shell and LineSpring Finite Elements
International Journal of Applied Mechanics, vol. 1, pp. 201—233, 2009, [DOI] 
Nonlinear Solid Finite Element Analysis of Mitral Valves With Heterogeneous Leaflet Layers
Computational Mechanics, vol. 43, pp. 353—368, 2009 
Modeling Active Muscle Contraction in Mitral Valve Leaflets During Systole: a First Approach
Biomechanics and Modeling in Mechanobiology, vol. 10, pp. 11—26, 2010, [DOI] 
Wire Tension Versus Wire Frequency: an Experimental Ilizarov Frame Study
Journal of Biomechanics, vol. 43, pp. 2327—2331, 2010, [DOI] 
Void Coalescence With Or Without Prestrain
International Journal of Damage Mechanics, vol. 19, pp. 153—174, 2010 
On Modelling and Analysis of Healthy and Pathological Human Mitral Valves: Two Case Studies
Journal of the Mechanical Behavior of Biomedical Materials, vol. 3, pp. 167—177, 2010, [DOI] 
Impact of Pulmonary Venous Locations on the IntraAtrial Flow and Mitral Plane Velocity Profile
Cardiovascular Engineering and Technology, vol. 3, pp. 2069—281, 2012 
FSISimulation of Asymmetric Mitral Valve Dynamics During Diastolic Filling
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 121—130, 2012 
Application of a Strong FSI Coupling Scheme for the Numerical Simulation of Bileaflet Mechanical Heart Valve Dynamics: Study of Wall Shear Stress on the Leaflets
Progress in Computational Fluid Dynamics, vol. 12, pp. 68—80, 2012 
Muscle Fibers in the Human Mitral Valve: Extent of Smooth Muscle and Implications for Dynamic Modelling
APMIS, vol. 120, pp. 484—494, 2012 
A Fast Strong Coupling Algorithm for the Partitioned FluidStructure Interaction Simulation of BMHVs
Computer Methods in Biomechanics and Biomedical Engineering, vol. 15, pp. 1281—1312, 2013 
Tension behaviour of HNBR and FKM elastomers for a wide range of temperatures
Journal of Polymer Testing, vol. 49, pp. 128—136, 2016, [DOI] 
Contributions of prestrains, hyperelasticity, and muscle fiber activation on mitral valve systolic performance
International Journal for Numerical Methods in Biomedical Engineering, 2016, [DOI] 
Contributions of prestrains, hyperelasticity, and muscle fiber activation on mitral valve systolic performance
International Journal for Numerical Methods in Biomedical Engineering, 2017 
Nanoindentation and finite element modelling of chitosan–alginate multilayer coated hydrogels
Soft Matter, 2017
Edited Books

MekIT´09. Fifth National Conference on Computational Mechanics
Tapir Academic Press, 2009
Chapters in Books

The Optics of Bruising
in OpticalThermal Response of LaserIrradiated Tissue, Edited by , Springer, 2010
Refereed Proceedings

A FirstApproach Towards PatientSpecific 2D FSISimulation of Mitral Valve Dynamics During Diastolic Filling
in MekIT07, Fourth national conference on Computational Mechanics, 2007 
Effect of Embedded Defects in Pipelines Subjected to Plastic Strains During Operation
in Proceedings of the Eighteenth (2008) International Offshore and Polar Engineering Conference, 2008 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
in 8th world Congress on Computational Mechanics/5th European Congress on Computational Methods in Applied sciences and Engineering, Venice, Italy, 2008 
Subject Specific Finite Element Analysis of Callus Distraction  a Preliminary Study
in Fifth national conference on Computational Mechanics (MekIT´09), 2009 
On Material Modelling of Umbilical Vein
in Fifth National Conference on Computational Mechanics (MekIT´09), 2009 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
in MekIT'09. Fifth national conference on Computational Mechanics, 2009 
Initial Study on Material Modeling of Umbilical Veins in Fetal Sheep
in 6th World Congress of Biomechanics, 2010 
FSI Simulation of the Mitral Valve With Contact and Active Anisotropic Material Models
in 6th World Congress of Biomechanics, 2010 
A Strong Coupling FSI Scheme for Simulating BMHV Dynamics
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
A Biomechanical Model for Human Umbilical Veins and Wharton's Jelly
in 8th International Conference on Computational Fluid Dynamics in the Oil & Gas, Metallurgical and Process Industries, 2011 
Effects of an Orthogonal Contractile System in the Anterior Leaflet on the Systolic Mitral Valve Response: a Nonlinear Finite Element Study
in 10th Internation Symposium, Computational Methods in Biomechanics and Biomedical Engineering, 2012 
Volumetric compression of HNBR and FKM elastomers
in 9. European Conference on Constitutive Models for Rubbers IX, Prague, Chech Republic, 2015, 2015 
Case study of elastomer seals using FEM
in MekIT'15 8th National Conference on Computational Mechanics, Trondheim, Norway, 2015
Conference Proceedings

On the Biomechanical Analysis of Bruises
in 21st Nordic Seminar on Computational Mechanics, 2008 
Alternative Elasticity Modeling Approaches for Mitral Valve Analysis: Consequences for Stress and Deformation Prediction
in Proceeding of the 22nd Nordic Seminar on Computational Mechanics, 2009 
Tissue Fiber Families in the Mitral Valve  Constitutive Modelling Numerical Analysis and Potential Clinical Application
in Proceeding of the 22nd Nordic Seminar on Computational Mechanics, 2009
Talks

Effects on Connective Tissue Pathologies on Mitral Valve Response
Talk at the Conference on Modeling of heterogeneous materials with application in construction and biomedical engineering, Prague, 2007 
Modeling of the Mitral Valve in the Heart
Talk at CBC Workshop on Biomedical Computing, Simula, 2007 
Surface and Embedded Crack in the Offshore Pipelines Subjected to Plastic Strains
Talk at the 6th international Conference on Computation of Shell and Spatial Structures, 2008 
A 2D PatientSpecific FSI Assessment of Mitral Valve Dynamics During Diastolic Filling
Presented at 8th.World Congress on Computational Mechanics (WCCM8)/5th European Congress on Computational Methods in Applied Sciences and Engineeering (ECCOMAS 2008), Venice, Italy, 2008 
Solid Versus Membrane Finite Elements in Analysis of the Mitral Valve: a Case Study
Talk at the 6th International Conference on Computation of Shell & Spatial Structures, 2008 
Alternative Elasticity Modeling Approaches for Mitral Valve Analysis: Consequences for Stress and Deformation Prediction
Talk at the 22nd Nordic seminar on Computational Mechanics, Aalborg, Denmark, October 2223 2009, 2009 
Tissue Fiber Families in the Mitral Valve  Constitutive Modelling Numerical Analysis and Potensial Clinical Application
Invited keynote talk at the 22nd Nordic Seminar on Computational Mechanics, Aalborg, Denmark, October 2223 2009, 2009 
Implicit Interaction of Two Rigid Mitral Leaflets in a Partitioned FluidStructure Approach
Talk at MekIT'09, Trondheim, May 27th, 2009 
Subject Specific Finite Element Analysis of a Callus Distraction  a Preliminary Study
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009 
Effect of Mitral Valve Shape on Flow Dynamics During Left Ventricular Contraction
World Congress in Biomechanics, Singapore, 2010 
Finite Element Analysis of the Mitral Valve With Active Muscle Fibres
SIAM CSE Reno, Nevada, USA, 2011 
Contributions of residual strains, hyperelasticity models, and muscle fiber activation on mitral valve systolic performance
9. European Solid Mechanics Conference, Madrid, 2015, 2015
Ola Skavhaug
Articles in International Journals

A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
Using Python to Solve Partial Differential Equations
Computing in Science & Engineering, vol. 9, pp. 48—51, 2007 
Penalty Methods for the Numerical Solution of American MultiAsset Option Problems
Journal of Computational and Applied Mathematics, vol. 222, pp. 3—16, 2008 
Unified Framework for Finite Element Assembly
International Journal of Computational Science and Engineering, vol. 4, pp. 231—244, 2009 
A Second Order Algorithm for Solving Dynamic Cell Membrane Equations
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 2546—2548, 2009 
Existence of Excitation Waves for a Collection of Cardiomyocytes Electrically Coupled to Fibroblasts
Mathematical Biosciences, vol. 230, pp. 79—86, 2011, [DOI] 
Unstable Eigenmodes As Possible Drivers for Cardiac Arrhythmias
Journal of the Royal Society Interface, vol. 8, pp. 1212—6, 2011 
NVersion Benchmark Evaluation of Cardiac Tissue Electrophysiology Simulators
Philosophical Transactions of the Royal Society A, vol. 369, pp. 4331—51, 2011, [DOI] 
Computing the Stability of SteadyState Solutions of Mathematical Models of the Electrical Activity in the Heart
Mathematical Biosciences and Engineering, vol. 41, pp. 611—618, 2011, [DOI] 
Simple T wave metrics may better predict early ischemia as compared to ST segment
IEEE Transactions on Biomedical Engineering, 2016, [DOI]
Chapters in Books

A Hybrid Approach to Efficient Finite Element Code Development
in Petascale Computing  Algorithms and Applications, Edited by , Chapman and Hall, 2007
Manuals

UFC Specification and User Manual 1.0
2007
Talks

Software Components for Solving PDEs
Talk at Modelling and Computation of Biomedical Processess Workshop, Simula Oslo, 20070612, 2007 
Using Python for Scientific Computing
CBC Seminar on advanced use of Python programming language, 2010
Jarle Sogn
Talks

Nitsche Based Methods for Unfitted Meshes for the Brinkman Problem
CBC seminar series, 2013
Mohammed Sourouri
Articles in International Journals

Scalable heterogeneous CPUGPU computations for unstructured tetrahedral meshes
IEEE Micro, vol. 35, pp. 6—15, 2015, [DOI] 
Panda: A Compiler Framework for Concurrent CPU+GPU Execution of 3D Stencil Computations on GPUaccelerated Supercomputers
International Journal of Parallel Programming, 2016, [DOI]
Refereed Proceedings

A New Parallel 3D Front Propagation Algorithm for Fast Simulation of Geological Folds
in The International Conference on Computational Science, ICCS 2012, 2012 
Effective MultiGPU Communication Using Multiple CUDA Streams and Threads
in 20th International Conference on Parallel and Distributed Systems (ICPADS 2014), 2014 
CPU+GPU Programming of Stencil Computations for ResourceEfficient Use of GPU Clusters
in IEEE 18th International Conference on Computational Science and Engineering, 2015 
On the Performance and Energy Efficiency of the PGAS Programming Model on Multicore Architectures
in High Performance Computing & Simulation (2016)  International Workshop on Optimization of Energy Efficient HPC & Distributed Systems, 2016
Technical Reports

Parallel Solvers for Static HamiltonJacobi Equations in Three Dimensions
Simula Research Laboratory, 2013
Theses

Scalable Heterogeneous Supercomputing: Programming Methodologies and Automated Code Generation
Ph.D. Thesis, UiO, 2015
Talks

Automated Code Generation for Coupling Heterogeneous Computing Devices
Extreme Scaling Workshop 2013, Boulder, CO, USA, 2013
Jacob Sturdy
Articles in International Journals

A guide to uncertainty quantification and sensitivity analysis for cardiovascular applications
International Journal for Numerical Methods in Biomedical Engineering, vol. 32, 2016, [DOI] 
Effects of arterial wall models and measurement uncertainties on cardiovascular model predictions
Journal of Biomechanics, 2017, [DOI] 
Modeling the differentiation of A and Ctype baroreceptor firing patterns
Journal of Computational Neuroscience, 2017
Refereed Proceedings

Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
in 4th International Conference on Computational and Mathematical Biomedical Engineering (CMBE), Paris, June 29July 3, 2015 
Towards robust clinical assessment of arterial compliance
in 28th Nordic Seminar on Computational Mechanics, 2015 
Uncertainty quantification of short term baroreflex regulation of blood pressure
in CMBE15, 4th International Conference on Computational & Mathematical Biomedical Engineering, 2015 
A Validation of Coupling Carotid and Aortic Baroreflex Models to a 1D Blood Flow Model of the Systemic Arterial Tree
in ICCB 2015, VI International Conference on Computational Bioengineering, 2015 
Uncertainty quantification and sensitivity analysis for wave propagation models of the arterial systemic circulation
in ICCB 2015, VI International Conference on Computational Bioengineering, Barcelona, 2015, 2015
Talks

Sensitivity Analysis and Uncertainty Quantification in a Wave Propagation Model: A Study of Uncertain Arterial Stiffness
4th International Conference on Computational and Mathematical Biomedical Engineering, France, 2015 
Towards robust clinical assessment of arterial compliance
28th Nordic Seminar on Computational Mechanics, 2015
KarenHelene Støverud
Articles in International Journals

CSF Flow in Chiari I and Syringomyelia From the Perspective of Computational Fluid Dynamics
The Neuroradiology Journal, vol. 24, pp. 20—23, 2011 
Modeling Concentration Distribution and Deformation During ConvectionEnhanced Drug Delivery Into Brain Tissue
Transport in Porous Media, vol. 92, pp. 119—143, 2012, [DOI] 
Effect of the Central Canal in the Spinal Cord on Fluid Movement Within the Cord
The Neuroradiology Journal, vol. 26, pp. 585—590, 2013 
Poroelastic modeling of Syringomyelia – a systematic study of the effects of pia mater, central canal, median fissure, white and gray matter on pressure wave propagation and fluid movement within the cervical spinal cord
Computer Methods in Biomechanics and Biomedical Engineering, vol. 19, pp. 686—698, 2015, [DOI] 
Computational Investigation of Cerebrospinal Fluid Dynamics in the Posterior Cranial Fossa and Cervical Subarachnoid Space in Patients with Chiari I Malformation
PLOS ONE, 2016
Refereed Proceedings

Porous and Viscous Flow Modeling on the Study of Cyst Development in the Human Spinal Cord
in 8th International Conference on CFD in Oil & Gas, Metallurgical and Process Industries, 2011 
The Effect of Varying CrossSectional Areas on Cerebrospinal Fluid Flow and Pressure in the Cervical Spine
in MekIT'11. Sixth national conference on Computational Mechanics, 2011 
Cyclic Cerebrospinal Fluid Flow (I): Towards the Understanding of Cerebrospinal Fluid Flow Dynamics in Chiari I Malformation
in ASNR 49th Annual Meeting & the Foundation of the ASNR Symposium, June 4  9, 2011., 2011 
Effect of Oscillatory Cerebrospinal Fluid Pressure on Fluid Movement in the Spinal Cord
in Seventh National Conference on Computational Mechanics (MekIT'13), 2013
Conference Proceedings

CSF Flow in Chiari I and Syringomyelia  From the Perspective of Fluid Dynamics
in Proceedings of the XIX Symposium Neuroradiologicum, Bologna, Italy, 2010
Theses

Relation Between the Chiari I Malformation and Syringomyelia From a Mechanical Perspective
Ph.D. Thesis, University of Oslo, 2014
Talks

Cerebrospinal Fluid (CSF)  Oscillating Flow and Pressure
CBC Workshop on Aerosols: Dispersion, Transport and Effects, Simula, November 10, 2010 
CSF Hydrodynamic in Patients With Syringomyelia and Chiari I Malformations
Annual NUPUS meeting in Freudenstadt, 2010 
From a Physical Problem to Computer Simulations
CBC Workshop on Cerebrospinal Fluid Flow in the Brain and Spinal Canal  Clinical, Experimental and Mathematical Models and Problems, Simula, May 28, 2010 
Cerebrospinal Fluid Flow in the Upper Cervical Canal in Patients With the Chiari I Malformation
1ST CSF Hydrodynamics Symposium, 2011 
Ongoing Research: Characterize CSF Flow and Identify the Cause of Syringomyelia With CFD
The workshop Working Toward a Day Without Pain Gala, Buffalo, 2011 
Cerebrospinal Fluid (CSF) Flow in Chiari I and Syringomyelia
CBC Seminar / Third semester presentation, 2011 
The Use and Potential of FEniCS in Medical Applications
FEniCS'11 / Red Raider Minisymposium 2011, Texas Tech University, Lubbock, November 2011, 2011 
CSF Flow and Pressure in the Cervical Spine
CBC Workshop on Biomedical Modeling, 2011 
Cerebrospinal Fluid (CSF) Oscillating Flow and Pressure
CBC Workshop on CSF Flow Associated with Chiari and Syringomyelia, 2011 
The Effect of Varying CrossSectional Areas on Cerebrospinal Fluid Flow and Pressure in the Cervical Spine
MekIT'11 Sixth national conference on Computational Mechanics, 2011 
The Relation Between Chiari I and Syringomyelia Model Concepts
CBC Workshop on AdjointBased Methods for Transient Problems: Software and applications, 2012 
Relation Between Chiari Malformation and Syringomyelia
Summer School on Modeling and Simulation of Soft Tissue BioMechanics, 2012 
CSF Flow Dynamics: Effects of Viscosity and Inertia
ANSR 2012, New York, 2012 
Magnetic Resonance Imaging (MRI)  the Basics
CBC Seminar series, 2012 
Effects of Pulsatile CSF Pressure on the Spinal Cord Tissue
CBC Seminar series, 2012 
Effect of Oscillatory CSF Pressure on Fluid Movement in the Spinal Cord
V International Symposium on Modelling Physiological Flow (MPF2013), 2013 
Effect of Oscillatory Cerebrospinal Fluid Pressure on the Spinal Cord Tissue
CBC seminar series, 2013 
On the Assumption of Laminar Flow of CSF in Chiari Patients
international Chiari Research Group, 2014 
CSF Flow at Foramen Magnum
International Hydrocephalus Imaging Working Group,Montreal, Canada, 2014 
Cerebrospinal Fluid Flow in Association With the Central Nervous System  Chiari and Drug Delivery
MS on Computational Biomechanics, WCCMECCMECCOM, 2014 
On the complexity of the Cerebrospinal fluid flow in the upper spinal column – is the assumption of laminar flow appropriate?
Cerebrospinal Fluid Dynamics Society Meeting, Amiens, 2015
Public Outreach

Kan Matematikk Hjelpe Pasienter Som Har Så Lite Hode at De Blir Kronisk Syke?
2013
Huayou Su
Articles in International Journals

ResourceEfficient Utilization of CPU/GPUBased Heterogeneous Supercomputers for Bayesian Phylogenetic Inference
The Journal of Supercomputing, vol. 66, pp. 364—380, 2013, [DOI] 
Balancing Efficiency and Accuracy for Sediment Transport Simulations
Computational Science & Discovery, vol. 6, pp. 015011, 2013, [DOI] 
High Efficient Sedimentary Basin Simulations on Hybrid CPUGPU Clusters
Cluster Computing, vol. 17, pp. 359—369, 2014, [DOI] 
Towards Simulation of Subcellular Calcium Dynamics at Nanometre Resolution
International Journal of High Performance Computing Applications, vol. 29, pp. 51—63, 2015, [DOI] 
An Analytical GPU Performance Model for 3D Stencil Computations from the Angle of Data Traffic
The Journal of Supercomputing, vol. 71, pp. 2433—2453, 2015, [DOI]
Refereed Proceedings

Performance of Sediment Transport Simulations on NVIDIA's Kepler Architecture
in The International Conference on Computational Science, ICCS 2013, 2013
Joakim Sundnes
Articles in International Journals

A Comparison of NonStandard Solvers for ODEs Describing Cellular Reactions in the Heart
Computer Methods in Biomechanics and Biomedical Engineering, vol. 10, pp. 317—326, 2007 
A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
An Unconditionally Stable Numerical Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
Mathematical Biosciences, vol. 208, pp. 375—392, 2007 
On the Frequency of Automaticity During Ischemia in Simulations Based on Stochastic Perturbations of the LuoRudy 1 Model
Computers in Biology and Medicine, vol. 38, pp. 1218—1227, 2008 
A Note on Discontinues Rate Functions for the Gate Variables in Mathematical Models of Cardiac Cells
Procedia Computer Science, vol. 1, pp. 945—950, 2008 
A Computationally Efficient Method for Determining the Size and Location of Myocardial Ischemia
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 263—272, 2009 
An Unconditionally Stable Second Order Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
International Journal of Numerical Analysis and Modeling, vol. 6, pp. 627—641, 2009 
A Second Order Algorithm for Solving Dynamic Cell Membrane Equations
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 2546—2548, 2009 
Numerical Solution of the Bidomain Equations
Philosophical Transactions of the Royal Society A, vol. 367, pp. 1931—1951, 2009 
Aproaching Cardiac Modeling Challenges to Computer Science With CellMlBased Web Tools
Future Generation Computer Systems, vol. 26, pp. 462—470, 2009 
Uncertainty Analysis of Ventricular Mechanics Using the Probabilistic Collocation Method
IEEE Transactions on Biomedical Engineering, vol. 59, pp. 2171—2179, 2012 
Electromechanical Feedback With Reduced Cellular Connectivity Alters Electrical Activity in an Infarct Injured Left Ventricle  a Finite Element Model Study
American Journal of Physiology  Heart and Circulatory Physiology, pp. H206—H214, 2012, [DOI] 
Effects of Deformation on Transmural Dispersion of Repolarization Using in Silico Models of Human Left Ventricular Wedge
International Journal for Numerical Methods in Biomedical Engineering, vol. 29, pp. 1323—1337, 2013 
Stable Time Integration Suppresses Unphysical Oscillations in the Bidomain Model
Frontiers in Physics, vol. 2, 2014 
Improved Discretisation and Linearisation of Active Tension in Strongly Coupled Cardiac ElectroMechanics Simulations
Computer Methods in Biomechanics and Biomedical Engineering, vol. 17, pp. 604—15, 2014 
Increased Membrane Capacitance Is the Dominant Mechanism of StretchDependent Conduction Slowing in the Rabbit Heart: a Computational Study
Cellular and Molecular Bioengineering, vol. 8, pp. 237—246, 2015 
An integrated electromechanicalgrowth heart model for simulating cardiac therapies
Biomechanics and Modeling in Mechanobiology, vol. 15, pp. 791—803, 2015 
Verification of cardiac mechanics software: benchmark problems and solutions for testing active and passive material behaviour
Proceedings of the Royal Society A, vol. 471, 2015 
Adjoint MultiStart Based Estimation of Cardiac Hyperelastic Material Parameters using Shear Data
Biomechanics and Modeling in Mechanobiology, pp. 1—13, 2016 
Spacediscretization error analysis and stabilization schemes for conduction velocity in cardiac electrophysiology
International Journal for Numerical Methods in Biomedical Engineering, 2016, [DOI] 
Physicsbased computer simulation of the longterm effects of cardiac regenerative therapies
Technology, vol. 4, pp. 23–29, 2016 
Methodology for morphometric analysis of modern human contralateral premolars
Journal of Computer Assisted Tomography, vol. 40, pp. 617—625, 2016 
An integrated electromechanicalgrowth heart model for simulating cardiac therapies
Biomechanics and modeling in mechanobiology, vol. 15, pp. 791–803, 2016 
High resolution data assimilation of cardiac mechanics
International journal for numerical methods in biomedical engineering, 2017, [DOI] 
An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Chapters in Books

Scientific Computing: Why  How  What  What's Next
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 237—248, 2009 
Computer Simulations of the Heart
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 259—276, 2009 
Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Lecture Notes in Computer Science, Springer International Publishing, pp. 93–104, 2014 
Bidomain Model: Computation
in Encyclopedia of Applied and Computational Mathematics, Edited by , Springer Berlin Heidelberg, pp. 125—128, 2015 
ElectroMechanical Coupling in Cardiac Tissue
in Encyclopedia of Applied and Computational Mathematics, Edited by , Springer Berlin Heidelberg, 2015
Refereed Proceedings

Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
in Fourth national conference on Computational Mechanics (MekIT'07), 2007 
Bioinformatics' Challenges to Computer Science
in Proceedings of the 8th international conference on Computational Science, Part III, 2008 
Uncertainty Analysis of the Mechanics of the Heart
in Proceedings of the Twenty Second Nordic Seminar on Computational Mechanics, 2009 
A Two Dimensional Model of Coupled Electromechanics in Cardiac Tissue
in Proceedings of the World Congress on Medical Physics and Biomedical Engineering, 2009 
The Development of a New Computational Model for the Electromechanics of the Human Myocyte
in 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2010 
3D Heart Modeling With Cellular Automata, MassSpring System and CUDA
in Parallel computing technologies, 2013 
Patient–Specific Parameter Estimation for a Transversely Isotropic Active Strain Model of Left Ventricular Mechanics
in Statistical Atlases and Computational Models of the HeartImaging and Modelling Challenges, 2015 
Personalized Cardiac Mechanical Model using a High Resolution Contraction Field
in VPH16 Translating VPH to the Clinic, 2016
Conference Proceedings

Least Squares Fitting of a Cardiac Hyperelasticity Model Using an Automatically Derived Adjoint Equation
in Proceedings of NSCM27: the 27th Nordic Seminar on Computational Mechanics, 2014 
Personalization of a Cardiac Compuational Model using Clinical Measurements
in 28th Nordic Seminar on Computational Mechanics, 2015 
Optimization of a Spatially Varying Cardiac Contraction parameter using the Adjoint Method
in FEniCS'16, 2016
Talks

Using Mathematical Models to Test Physiological Hypotheses
Invited talk at the annual meeting of the Scandinavian Physiological Society, 2007 
Application of Symbolic Finite Element Tools to Nonlinear Hyperelasticity
Talk at MekIT'07: Fourth National Conference on Computational Mechanics, 2007 
Computational Techniques for Heart Muscle Mechanics
Minisymposium talk at ICIAM 07, Zurich, 2007 
Software Components for Biomedical Flows
National seminar on medical technology, NFA (Norsk forening for automatisering), 2007 
A Finite Element Model of Cardiac Electrophysiology and Mechanics
VII International conference on computational plasticity, 2007 
Computational Challenges in Mathematical Models of the Heart
Talk at Norwegian University of Life Sciences, January 30th, 2008 
Computer Modeling of Cardiac ElectroMechanics  Models and Numerical Methods
Talk at Cardiac Modeling seminar, Simula Research Laboratory, 2009 
Multiscale Models of Physiological Systems
Guest lecture at the course Bioinformatics for molecular biology, University of Oslo, 2009 
Simulation of Strongly Coupled ElectroMechanics in an Infarcted Left Ventricle
Invited talk at the workshop Bidomain 2009, University of Graz, 2009 
The Baby Justicia Project: Biomechanical Investigations of the Shaken Baby Syndrome (SBS)
WCB2010, Seminar session, Head/Brain Injury  Models, 2010 
Strongly Coupled ElectroMechanics Simulations of the Infarct Injured Heart
International Conference on Numerical Methods and Applied Mathematics, Greece, 2011 
Computer Simulations of ElectroMechanical Interactions in the Heart
CBC Workshop on AdjointBased Methods for Transient Problems: Software and Applications, 2012 
On the Stability of Operator Splitting Schemes for Strongly Coupled Cardiac ElectroMechanics
World Congress on Computational Mechanics, Sao Paulo, Brazil, 2012 
Strongly Coupled Simulations of Cardiac ElectroMechanics
CBC seminar, 2012 
Numerical Methods for Strongly Coupled Simulations of Cardiac ElectroMechanics
Workshop on efficient solvers in biomedical applications, Graz, Austria, 2012 
Computer Models of ElectroMechanical Interactions in the Contracting Heart
Workshop on computational models in biomedicine, Federal University of Juiz de Fora, Brazil, 2012 
Computer Models of ElectroMechanical Interactions in the Contracting Heart
Seminar at the Norwegian Defence Research Establishment, 2012 
Towards PatientSpecific Models of Strongly Coupled Cardiac ElectroMechanics
Cardiac Physiome Workshop, San Diego, 2012 
Computational Models of ElectroMechanical Interactions in the Infarct Injured Heart
National PhD conference in medical Imaging, Trondheim, Norway, 2012 
PatientSpecific Models of Cardiac ElectroMechanics
Federal University of Juiz de Fora, 2013 
A Continuum Model for Active Cardiac Muscle
World congress on Computational Mechanics, Barcelona, Spain, 2014 
Patient Specific Models of Cardiac ElectroMechanics
Seminar at Ecole des Mines, St Etienne, France, 2014 
Computational Models of ElectroMechanical Interactions in the Heart
Invited mini symposium presentation at the European Conference for Mathematics in Industry, Taormina, Italy., 2014 
Computational Models of ElectroMechanical Interactions in the Heart
The Nordic Seminar on Computational Mechanics, Stockholm, 2014 
Identifying the Parameters of the Heart: Variational Data Assimilation in Cardiac Mechanics Using DolfinAdjoint
FEniCS '15, Imperial College London, UK, 2015 
Computational models of electromechanical interactions in the heart
University of Uppsala, 2015 
Significance of passive material parameters in mechanical models of the heart
Lugano, Switzerland, 2015 
Impact of material parameter uncertainty on stress in patient specific models of the heart
SIAM Conference on uncertainty quantification, Lausanne, Switzerland, 2016 
Impact of material parameter variations on stress in patient specific models of the heart
World Congress on Computational Mechanics, Seoul, South Korea, 2016 
A Computational Model for the Identification of Atrial Stunning Pathways
2017 EMI International Conference, 2017
Posters

Mechanoelectric feedback as a source of ectopic activity
Gordon Research Conference on Arrhythmia Mechanisms, Lucca, Italy, 2015 
Patient Specific Modeling of Cardiac Mechanics using the Active Strain Formulation
Geilo Winter School, 2016 
Mechanical Analysis of Pulmonary Hypertension via Adjoint based Data Assimilation of a Finite Element Model
2017
Viviane Timmermann
Posters

Mechanoelectric feedback as a source of ectopic activity
Gordon Research Conference on Arrhythmia Mechanisms, Lucca, Italy, 2015
Kirsten ten Tusscher
Articles in International Journals

Modeling of the Ventricular Conduction System
Progress in Biophysics and Molecular Biology, vol. 96, pp. 152—170, 2008 
Effect of Heterogeneous APD Restitution on VF Organization in a Model of the Human Ventricles
American Journal of Physiology  Heart and Circulatory Physiology, vol. 294, pp. H764—H774, 2008 
A Computational Study of Mother Rotor VF in the Human Ventricles
American Journal of Physiology  Heart and Circulatory Physiology, vol. 296, pp. H370—H379, 2009 
Organization of Ventricular Fibrillation in the Human Heart: Experiments and Models
Experimental Physiology, vol. 94, pp. 553—562, 2009 
The Role of Genome and Gene Regulatory Network Canalization in the Evolution of MultiTrait Polymorphisms and Sympatric Speciation.
BMC Evolutionary Biology, vol. 9, pp. 159, 2009
Talks

The Role of Genome and Regulatory Network Architecture Canalization in the Evolution of MultiTrait Polymorphism and Sympatric Speciation.
presentation at the Centre for Ecological and Evolutionary Synthesis at the University of Oslo, Department of Biology, 2008 
Evolutionary Biology for NonBiologists
talk at the yearly CBC seminar, 2008 
Genome and Gene Regulatory Network Canalization in the Evolution of Polymorhism and Sympatric Speciation.
presentationat Symposium Celebrating 30 years of Bioinformatics at Utrecht University, 2008 
Computational Biology of Cardiac Arrhythmias and Evolutionary Processes
invited talk, May 2009, Dundee, 2009 
Genetic Architecture in Polymorphism and Sympatric Speciation
workshop talk, July 2009, Vienna, 2009 
Evolution of Complex, Differentiated Body Plans, Work in Progress
invited talk, April 2009, Groningen, 2009 
The Role of Genome and Gene Regulatory Network Canalization in the Evolution of MultiTrait Polymorphisms and Sympatric Speciation
invited talk, September 2009, Groningen, 2009
Murat Tutkun
Articles in International Journals

ThreeComponent Vectorial Proper Orthogonal Decomposition of Axisymmetric Wake Behind a Disk
AIAA Journal, vol. 46, pp. 1118—1134, 2008, [DOI] 
In Situ Calibration of Hot Wire Probes in Turbulent Flows
Experiments in Fluids, vol. 46, pp. 617—629, 2009, [DOI] 
Mind the Gap: a Guideline for Large Eddy Simulation
Philosophical Transactions of the Royal Society A, vol. 367, pp. 2839—2847, 2009, [DOI] 
Double Large Field Stereoscopic PIV in a High Reynolds Number Turbulent Boundary Layer
Experiments in Fluids, vol. 50, pp. 1—12, 2009, [DOI] 
TwoPoint Correlations in High Reynolds Number Flat Plate Turbulent Boundary Layers
Journal of Turbulence, vol. 10, 2009, [DOI] 
Dispersion of LegionellaContaining Aerosols From a Biological Treatment Plant
Frontiers in Bioscience, vol. E3, pp. 1300—1309, 2011
Refereed Proceedings

SpaceTime Correlations From a 143 HotWire Rake in High Reynold Number Turbulent Boundary Layer
in AIAA Theoretical Fluid Mechanics Conference, 2008 
Proper Orthogonal Decomposition of Velocity and Scalar Fields in Shear Generated Turbulence
in MekIT´09. Fifth national conference on Computational Mechanics, 2009 
Modeling the Dispersion and Transport of Aerosols Emitted From Industrial Facility During 2005 and 2008 Outbreaks of Legionnaire's Disease in Norway
in Sixth national conference on Computational Mechanics (MekIT'11), 2011 
Verification of Markovian Properties of Turbulent Boundary Layer at High Reynolds Number
in Sixth national conference on Computational Mechanics (MekIT'11), 2011
Conference Proceedings

TwoPoint CrossSpectral and POD Analysis of High Reynold Number Zero Pressure Gradient Turbulent Boundary Layer
in Bulletin of American Physical Society, 61th Annual meeting of the APS Division of fluid dynamics, 2008 
Measuring Spectra With BurstMode LDA
in Bulletin of the American Physical Society, 61th Annual meeting of the APS Division of fluid dynamics, 2008
Theses

Structure of Zero Pressure Gradient High Reynolds Number Turbulent Boundary Layersn
Ph.D. Thesis, Chalmers University of Technology, 2008
Talks

Stochastic Analysis of Turbulence: NScale and NPoint Correlations in Homogeneous an Inhomogeneous Turbulent Flows
Presented at the iTi Conference on Turbulence III, Bertinoro, Italy, 2008 
Large Scale Structures of High Reynold Number Turbulent Boundary Layers
Invited talk at the Workshop on Wall Bounded Shear Flows: Transistion and Turbulence, Cambridge University, Isaac Newton Institute for Mathematical Science, 2008 
Proper Orthogonal Decomposition of Velocity and Scalar Fields in Shear Generated Turbulence
Talk at MekIT'09: Fifth National Conference on Computational Mechanics, Trondheim, May 2627, 2009
Aslak Tveito
Articles in International Journals

On the Accuracy of Operator Splitting As Applied to Discretized Reaction Diffusion Systems
International Journal of Computer Mathematics, vol. 84, pp. 871—885, 2007 
Optimal Monodomain Approximations of the Bidomain Equations
Applied Mathematics and Computation, vol. 184, pp. 276—290, 2007 
An Order Optimal Solver for the Discretized Bidomain Equations
Numerical Linear Algebra with Applications, vol. 14, pp. 83—98, 2007 
A Linear System of Partial Differential Equations Modeling the Resting Potential of a Heart With Regional Ischemia
Mathematical Biosciences, vol. 210, pp. 238—252, 2007 
An Unconditionally Stable Numerical Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
Mathematical Biosciences, vol. 208, pp. 375—392, 2007 
A Note on the Efficiency of the Conjugate Gradient Method for a Class of TimeDependent Problems
Numerical Linear Algebra with Applications, vol. 14, pp. 459—467, 2007 
On the Use of the Resting Potential and Level Set Methods for Identifying Ischemic Heart Disease; an Inverse Problem
Journal of Computational Physics, vol. 220, pp. 772—790, 2007 
Penalty Methods for the Numerical Solution of American MultiAsset Option Problems
Journal of Computational and Applied Mathematics, vol. 222, pp. 3—16, 2008 
On the Frequency of Automaticity During Ischemia in Simulations Based on Stochastic Perturbations of the LuoRudy 1 Model
Computers in Biology and Medicine, vol. 38, pp. 1218—1227, 2008 
A Condition for Setting Off Ectopic Waves in Computational Models of Excitable Cells
Mathematical Biosciences, vol. 213, pp. 141—150, 2008, [DOI] 
Preconditioning by Inverting the Laplacian; an Analysis of the Eigenvalues
IMA Journal of Numerical Analysis, vol. 29, pp. 24—42, 2009 
Synchronizing Computer Simulations With Measurement Data for a Case of Atrial Flutter
Annals of Biomedical Engineering, vol. 37, pp. 1287—1293, 2009 
An Unconditionally Stable Second Order Method for the LuoRudy 1 Model Used in Simulations of Defibrillation
International Journal of Numerical Analysis and Modeling, vol. 6, pp. 627—641, 2009 
A Second Order Algorithm for Solving Dynamic Cell Membrane Equations
IEEE Transactions on Biomedical Engineering, vol. 56, pp. 2546—2548, 2009 
A Note on a Method for Determining Advantageous Properties of an AntiArrhythmic Drug Based on a Mathematical Model of Cardiac Cells
Mathematical Biosciences, vol. 217, pp. 167—173, 2009, [DOI] 
Numerical Solution of the Bidomain Equations
Philosophical Transactions of the Royal Society A, vol. 367, pp. 1931—1951, 2009 
A Method for Analyzing the Stability of the Resting State for a Model of Pacemaker Cells Surrounded by Stable Cells
Mathematical Biosciences and Engineering, vol. 7, pp. 505—526, 2010 
Existence of Excitation Waves for a Collection of Cardiomyocytes Electrically Coupled to Fibroblasts
Mathematical Biosciences, vol. 230, pp. 79—86, 2011, [DOI] 
Unstable Eigenmodes As Possible Drivers for Cardiac Arrhythmias
Journal of the Royal Society Interface, vol. 8, pp. 1212—6, 2011 
Computing the Stability of SteadyState Solutions of Mathematical Models of the Electrical Activity in the Heart
Mathematical Biosciences and Engineering, vol. 41, pp. 611—618, 2011, [DOI] 
Stability of Two TimeIntegrators for the AlievPanfilov System
International Journal of Numerical Analysis and Modeling, vol. 8, pp. 427—442, 2011 
On Defining Candidate Drug Characteristics for LongQT
Mathematical Biosciences and Engineering, vol. 8, pp. 861—873, 2011 
Instabilities of the Resting State in a Mathematical Model of Calcium Handling in Cardiac Myocytes
Mathematical Biosciences, vol. 236, pp. 97—107, 2012, [DOI] 
A Note on a Possible ProArrhythmic Property of AntiArrhythmic Drugs Aimed at Improving GapJunction Coupling
Biophysical Journal, vol. 102, pp. 231—237, 2012 
An Analysis of the Shock Strength Needed to Achieve Defibrillation in a Simplified Mathematical Model of Cardiac Tissue
International Journal of Numerical Analysis and Modeling, vol. 9, pp. 644—657, 2012 
Slow CalciumDepolarizationCalcium Waves May Initiate Fast Local Depolarization Waves in Ventricular Tissue
Progress in Biophysics and Molecular Biology, vol. 110, pp. 295—304, 2012 
Mathematical Models of Cardiac Pacemaking Function
Frontiers in Physics, vol. 1, 2013, [DOI] 
Computing rates of Markov models of voltagegated ion channels by inverting partial differential equations governing the probability density functions of the conducting and nonconducting states
Mathematical Biosciences, vol. 277, pp. 126—135, 2016 
An Evaluation of the Accuracy of Classical Models for Computing the Membrane Potential and Extracellular Potential for Neurons
Frontiers in Computational Neuroscience, vol. 11, pp. 27, 2017
Books

Introduction to Partial Differential Equations; a Computational Approach
Springer, 2009 
Elements of Scientific Computing
Springer, 2010 
Computing characterizations of drugs for ion channels and receptors using Markov models
Springer, 2016
Edited Books

Simula Research Laboratory  by Thinking Constantly About It
Springer, 2009 
Conversations About Challenges in Computing
Springer, 2013
Chapters in Books

Can ECG Recordings and Mathematics Tell the Condition of Your Heart?
in Simula Research Laboratory  by thinking constantly about it, Edited by , Springer, pp. 287—319, 2009 
Scientific Computing
in Encyclopedia of Applied and Computational Mathematics, Edited by , SpringerVerlag, pp. 1302—1310, 2015 
Computational Partial Differential Equations
in Encyclopedia of Applied and Computational Mathematics, Edited by , SpringerVerlag, pp. 271—278, 2015
Talks

On the Use of Computer Simulations for Identifying Ischemic Heart Disease; Theoretical and Practical Aspects
Presented at the workshop Mathematics in Medicine/Biology, Centre of Mathematics for Applications, Department of Mathematics, University of Oslo, 2008 
Theoretical and Practical Aspects of the Inverse Problem of Electrocardiography
Presented at Institut für Mathematik und Wissenschaftliches Rechnen, Karl Franzes Universität in Graz, Austria. Also presented at Institut für Numerische und Angewandte Mathematik, Westfälische WilhelmsUniversität Münster, Germany, 2008 
The Inverse Problem of Identifying Ischemic Heart Disease
Presented at the annual meeting of European Cardiac Simulation Group, Bologna, Italy, 2008 
Antiarrhythmic Drug Identifaction
Presented at the Bidomain Workshop, Graz, Austria, 2009 
Modelling, Mathematical Properties and Validation of the Inverse Ischemia Problem
Presented at the Bidomain Workshop, Graz, Austria, 2009
Posters

Mechanoelectric feedback as a source of ectopic activity
Gordon Research Conference on Arrhythmia Mechanisms, Lucca, Italy, 2015
Kristin Tøndel
Articles in International Journals

A computational pipeline for quantification of mouse myocardial stiffness parameters
Computers in Biology and Medicine, vol. 53, pp. 65–75, 2014, [DOI] 
Quantifying interspecies differences in contractile function through biophysical modelling
Journal of Physiology, vol. 593, pp. 1083—1111, 2014, [DOI] 
Global structure of sloppiness in a nonlinear model
Journal of Chemometrics, vol. 28, pp. 645—655, 2014, [DOI] 
Analyzing complex mathematical model behavior by Partial Least Squares Regressionbased Multivariate Metamodeling
Wiley Interdisciplinary Reviews: Computational Statistics, vol. 6, pp. 440–475, 2014, [DOI] 
Insight into Model Mechanisms through Automatic Parameter Fitting: A new Methodological Framework for Model Development
BMC Systems Biology, vol. 8, pp. 59, 2014
Didem Unat
Articles in International Journals

Accelerating a 3D FiniteDifference Earthquake Simulation With a CtoCUDA Translator
Computing in Science & Engineering, vol. 14, pp. 48—59, 2012, [DOI] 
Modeling and Predicting Performance of High Performance Computing Applications on Hardware Accelerators
International Journal of High Performance Computing Applications, vol. 27, pp. 89—108, 2013, [DOI]