David Gavaghan

Orcid: 0000-0001-8311-3200

Affiliations:
  • University of Oxford, UK


According to our database1, David Gavaghan authored at least 52 papers between 2000 and 2024.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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Bibliography

2024
Ten simple rules for training scientists to make better software.
PLoS Comput. Biol., 2024

Ten simple rules for teaching sustainable software engineering.
CoRR, 2024

2023
Model-driven optimal experimental design for calibrating cardiac electrophysiology models.
Comput. Methods Programs Biomed., October, 2023

Filter inference: A scalable nonlinear mixed effects inference approach for snapshot time series data.
PLoS Comput. Biol., 2023

Understanding the impact of numerical solvers on inference for differential equation models.
CoRR, 2023

2022
Normalisation of Action Potential Data Recorded with Sharp Electrodes Maximises Its Utility for Model Development.
Proceedings of the Computing in Cardiology, 2022

Modelling the Effect of Intracellular Calcium in the Rundown of L-Type Calcium Current.
Proceedings of the Computing in Cardiology, 2022

2021
Barely sufficient practices in scientific computing.
Patterns, 2021

2020
Chaste: Cancer, Heart and Soft Tissue Environment.
J. Open Source Softw., 2020

Model Evidence with Fast Tree Based Quadrature.
CoRR, 2020

2018
Probabilistic Inference on Noisy Time Series (PINTS).
CoRR, 2018

2017
Comparing individual-based approaches to modelling the self-organization of multicellular tissues.
PLoS Comput. Biol., 2017

The role of the Hes1 crosstalk hub in Notch-Wnt interactions of the intestinal crypt.
PLoS Comput. Biol., 2017

Ten simple rules for surviving an interdisciplinary PhD.
PLoS Comput. Biol., 2017

2016
Hierarchical Bayesian Modelling of Variability and Uncertainty in Synthetic Action Potential Traces.
Proceedings of the Computing in Cardiology, CinC 2016, Vancouver, 2016

2015
Ten Simple Rules for a Successful Cross-Disciplinary Collaboration.
PLoS Comput. Biol., 2015

Review of automatic pulmonary lobe segmentation methods from CT.
Comput. Medical Imaging Graph., 2015

2014
Ten Simple Rules for Effective Computational Research.
PLoS Comput. Biol., 2014

The Free Energy Landscape of Dimerization of a Membrane Protein, NanC.
PLoS Comput. Biol., 2014

Model Composition for Biological Mathematical Systems.
Proceedings of the MODELSWARD 2014 - Proceedings of the 2nd International Conference on Model-Driven Engineering and Software Development, Lisbon, Portugal, 7, 2014

2013
Chaste: An Open Source C++ Library for Computational Physiology and Biology.
PLoS Comput. Biol., 2013

A local sensitivity analysis method for developing biological models with identifiable parameters: Application to cardiac ionic channel modelling.
Future Gener. Comput. Syst., 2013

2012
Contrast-Independent Curvilinear Structure Detection in Biomedical Images.
IEEE Trans. Image Process., 2012

A Bidomain Model of the Ventricular Specialized Conduction System of the Heart.
SIAM J. Appl. Math., 2012

A Two-Dimensional Model of the Colonic Crypt Accounting for the Role of the Basement Membrane and Pericryptal Fibroblast Sheath.
PLoS Comput. Biol., 2012

Modules for Reusable and Collaborative Modelling of Biological Mathematical Systems.
Proceedings of the 21st IEEE International Workshop on Enabling Technologies: Infrastructure for Collaborative Enterprises, 2012

Modular mathematical modelling of biological systems.
Proceedings of the 2012 Spring Simulation Multiconference, 2012

Pulmonary lobe segmentation from CT images using fissureness, airways, vessels and multilevel B-splines.
Proceedings of the 9th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2012

Resolving the Three-Dimensional Histology of the Heart.
Proceedings of the Computational Methods in Systems Biology, 2012

2011
Regionally Optimised Mathematical Models of Cardiac Myocyte Orientation in Rat Hearts.
Proceedings of the Functional Imaging and Modeling of the Heart, 2011

2010
A Posteriori Error Analysis for the Use of Lookup Tables in Cardiac Electrophysiology Simulations.
SIAM J. Sci. Comput., 2010

A Local Sensitivity Analysis Method for Developing Biological Models with Identifiable Parameters: Application to L-type Calcium Channel Modelling.
Proceedings of the Sixth International Conference on e-Science, 2010

Electrochemical Parameter Optimization Using Scientific Workflows.
Proceedings of the Sixth International Conference on e-Science, 2010

On the Secure Sharing and Aggregation of Data to Support Systems Biology Research.
Proceedings of the Data Integration in the Life Sciences, 7th International Conference, 2010

2009
Chaste: A test-driven approach to software development for biological modelling.
Comput. Phys. Commun., 2009

Comparison of Rule-Based and DTMRI-Derived Fibre Architecture in a Whole Rat Ventricular Computational Model.
Proceedings of the Functional Imaging and Modeling of the Heart, 2009

2008
Predicting Tumor Location by Modeling the Deformation of the Breast.
IEEE Trans. Biomed. Eng., 2008

Incorporating Local Ca2<sup>+</sup> Dynamics into Single Cell Ventricular Models.
Proceedings of the Computational Science, 2008

High Performance Computer Simulations of Cardiac Electrical Function Based on High Resolution MRI Datasets.
Proceedings of the Computational Science, 2008

2007
Integrative Biology - the challenges of developing a collaborative research environment for heart and cancer modelling.
Future Gener. Comput. Syst., 2007

An Iterative Method for Registration of High-Resolution Cardiac Histoanatomical and Mri Images.
Proceedings of the 2007 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2007

2006
Vulnerability to electric shocks in the regionally-ischemic ventricles.
Proceedings of the 28th International Conference of the IEEE Engineering in Medicine and Biology Society, 2006

Transmural electrophysiological heterogeneities in action potential duration increase the upper limit of vulnerability.
Proceedings of the 28th International Conference of the IEEE Engineering in Medicine and Biology Society, 2006

Modulation of Shock-End Virtual Electrodoe Polarisation as a Direct Result of 3D Fluorescent Photon Scattering.
Proceedings of the 28th International Conference of the IEEE Engineering in Medicine and Biology Society, 2006

A Prototype Infrastructure for the Secure Aggregation of Imaging and Pathology Data for Colorectal Cancer Care.
Proceedings of the 19th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2006), 2006

2005
Oxygen transport to muscle tissue where regions of low oxygen tension exist.
Math. Comput. Model., 2005

Challenges of Ultra Large Scale Integration of Biomedical Computing Systems.
Proceedings of the 18th IEEE Symposium on Computer-Based Medical Systems (CBMS 2005), 2005

2004
Predicting Tumour Location by Simulating Large Deformations of the Breast Using a 3D Finite Element Model and Nonlinear Elasticity.
Proceedings of the Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2004, 2004

2002
The Dynamics and Pinning of a Spike for a Reaction-Diffusion System.
SIAM J. Appl. Math., 2002

Climateprediction.net: Design Principles for Publicresource Modeling Research.
Proceedings of the International Conference on Parallel and Distributed Computing Systems, 2002

XML for Visualization.
Proceedings of the Web and the Grid: from e-science to e-business. EuroWeb 2002 Conference, 2002

2000
Discovering the Structure of Partial Differential Equations from Example Behaviour.
Proceedings of the Seventeenth International Conference on Machine Learning (ICML 2000), Stanford University, Stanford, CA, USA, June 29, 2000


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