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Modular Dynamic Biomolecular Modelling: The Unification of Stoichiometry, Thermodynamics, Kinetics and Data
P.J. Gawthrop, M. Pan, E.J. Crampin

Analysing and simulating energy-based models in biology using BondGraphTools
P. Cudmore, M. Pan, P.J. Gawthrop, E.J. Crampin

Ca2+ release via IP3Rs increases RyR mediated Ca2+ spark frequency in ventricular cardiomyocytes without altering spark amplitude and duration
A. Tilūnaitė, D. Ladd, H. Hunt, C. Soeller, H.L. Roderick, E.J. Crampin, V. Rajagopal

Maintaining the stem cell niche in multicellular models of epithelia
C. Miller, E.J. Crampin, J. Osborne


Hierarchical semantic composition of biosimulation models using bond graphs
N. Shahidi, M. Pan, S. Safaei, K. Tran, E.J. Crampin, D.P. Nickerson (2021)
PLoS Computational Biology

Understanding nano-engineered particle-cell interactions: biological insights from mathematical models
S.T Johnston, M. Faria, E.J. Crampin (2021)
Nanoscale Advances, 2021, DOI: 10.1039/D0NA00774A


Network Thermodynamical Modeling of Bioelectrical Systems: A Bond Graph Approach
P.J. Gawthrop, M. Pan (2020)
Bioelectricity (in press)

Modelling cardiomyocyte energetics
E.J. Crampin, M. Pan, K. Tran, S. Ghosh, V. Rajagopal (2020)
In: T. Krogh-Madsen and D.J. Christini (eds.) Modeling and Simulating Cardiac Electrical Activity. Biophysical Society – IOP Series, IOP Publishing.

IP3R Ca2+ release shapes the cytosolic Ca2+ transient for hypertrophic signalling in cardiomyocytes
H. Hunt, A. Tilūnaitė, G. Bass, C. Soeller, L. Roderick, V. Rajagopal, E.J. Crampin (2020)
Biophysical Journal 119 (6), 1178-1192

Predicting population extinction in lattice-based birth–death–movement models
S.T. Johnston, M.J. Simpson, E.J. Crampin (2020)
Proceedings of the Royal Society A 476:20200089

Insights From Computational Modeling Into the Contribution of Mechano-Calcium Feedback on the Cardiac End-Systolic Force-Length Relationship
M.E. Guidry, D.P. Nickerson, E.J. Crampin, M.P. Nash, D.S. Loiselle, K. Tran (2020)
Frontiers in Physiology 11, 587

Isolating the sources of heterogeneity in nano-engineered particle–cell interactions
S.T. Johnston, M. Faria, E.J. Crampin (2020)
Journal of the Royal Society Interface 17 (166), 20200221

Physically-Plausible Modelling of Biomolecular Systems: A Simplified, Energy-Based Model of the Mitochondrial Electron Transport Chain
P.J. Gawthrop, P. Cudmore, E.J. Crampin (2020)
Journal of Theoretical Biology

A few clarifications on MIRIBEL
M. Faria, M. Björnmalm, E.J. Crampin, F. Caruso (2020)
Nature Nanotechnology 15 (1), 2-3


Assessing cardiomyocyte excitation-contraction coupling site detection from live cell imaging using a structurally-realistic computational model of calcium release
D. Ladd, A. Tilunaite, H.L. Roderick, C. Soeller, E.J. Crampin, V. Rajagopal (2019)
Frontiers in Physiology 10:1263

Computer-aided modelling of complex physical systems with BondGraphTools
P. Cudmore, P.J. Gawthrop, M. Pan, E.J. Crampin (2019)

Revisiting cell–particle association in vitro: A quantitative method to compare particle performance
M. Faria, K.F. Noi, Q. Dai, M. Björnmalm, S.T. Johnston, K. Kempe, F. Caruso, E.J. Crampin (2019)
Journal of Controlled Release 307, 355-367

Link between Low-Fouling and Stealth ‒ A Whole Blood Biomolecular Corona and Cellular Association Analysis on Nanoengineered Particles
A.C.G. Weiss, H.G. Kelly, M. Faria, Q.A. Besford, A.K. Wheatley, C.-S. Ang, E.J. Crampin, F. Caruso, S.J. Kent (2019)
ACS Nano 13 (5), 4980–4991

Corrected pair correlation functions for environments with obstacles
S.T. Johnston, E.J. Crampin (2019)
Physical Review E 99, 032124

Mathematical modelling indicates that lower activity of the haemostatic system in neonates is primarily due to lower prothrombin concentration
I. Siekmann, S. Bjelosevic, K. Landman, P. Monagle, V. Ignjatovic, E.J. Crampin (2019)
Scientific Reports 9 (1), 3936

Data-driven modelling of the Inositol-Trisphosphate Receptor (IP3R) and its role in  Calcium-Induced Calcium Release (CICR)
I. Siekmann, P. Cao, J. Sneyd, E.J. Crampin (2019)
in: M. De Pittà, H. Berry (eds.), Computational Glioscience. Springer Series in Computational Neuroscience. Springer, Cham

A thermodynamic framework for modelling membrane transporters
M. Pan, P.J. Gawthrop, J. Cursons, K. Tran, E.J. Crampin (2019)
Journal of Theoretical Biology 481, 10-23


Insights on the impact of mitochondrial organisation on bioenergetics in high-resolution computational models of cardiac cell architecture
S. Ghosh. K. Tran, L. Delbridge, A. Hickey, E. Hanssen, E.J. Crampin, V. Rajagopal (2018)
PLoS Computational Biology 14(12): e1006640

Bond Graph Representation of Chemical Reaction Networks
P.J. Gawthrop, E.J. Crampin (2018)
IEEE Transactions on NanoBioscience 17 (4), 449–455

Reference environments: A universal tool for reproducibility in computational biology
D.G. Hurley, J. Cursons, M. Faria, D.M. Budden, V. Rajagopal, E.J. Crampin (2018)

Minimum Information Reporting in Bio–Nano Experimental Literature
M. Faria, M. Björnmalm, K.J. Thurecht, S.J. Kent, R.G. Parton, M. Kavallaris, A.P.R. Johnston, J.J. Gooding, S.R. Corrie, B.J. Boyd, P. Thordarson, A.K. Whittaker, M.M. Stevens, C.A. Prestidge, C.J.H. Porter, W.J. Parak, T.P. Davis, E.J. Crampin*, F. Caruso* (2018)
Nature Nanotechnology 13, 777–785
Download the paper / Supplementary Information / MIRIBEL website

Read the Nature Nanotechnology editorial about our work
Responses from the community: Nature Nanotechnology 14, 625 (2019)
Our response to community commentaries: Nature Nanotechnology 15, 2-3 (2020)

An analytical approach for quantifying the influence of nanoparticle polydispersity on cellular delivered dose
S.T. Johnston, M. Faria, E.J. Crampin (2018)
Journal of the Royal Society Interface 15: 20180364

Combinatorial Targeting by MicroRNAs Co-ordinates Post-transcriptional Control of EMT
J. Cursons, K.A. Pillman, K.G. Scheer, P.A. Gregory, M. Foroutan, S. Hediyeh-Zadeh, J. Toubia, E.J. Crampin, G.J. Goodall, C.P. Bracken, M.J. Davis (2018)
Cell Systems 7, 77–91

Bond graph modelling of the cardiac action potential: implications for drift and non-unique steady states
M. Pan, P.J. Gawthrop, K. Tran, J. Cursons, E.J. Crampin (2018)
Proceedings of the Royal Society A 474: 20180106

Biomolecular System Energetics
P.J. Gawthrop, E.J. Crampin (2018)
Proceedings of the 13th International Conference on Bond Graph Modeling (ICBGM’18)

DiSNE Movie Visualization and Assessment of Clonal Kinetics Reveals Multiple Trajectories of Dendritic Cell Development
D. Lin, A. Kan, J. Gao, E.J. Crampin, P.D. Hodgkin, S.H. Naik (2018)
Cell Reports 22 (10), 2557–2566

Creating a Structurally Realistic Finite Element Geometric Model of a Cardiomyocyte to Study the Role of Cellular Architecture in Cardiomyocyte Systems Biology
V. Rajagopal, G. Bass, S. Ghosh, C.G. Walker, E. Hanssen, E.J. Crampin, C. Soeller (2018)
Journal of Visualized Experiments (134), e56817


A computational study of the role of mitochondrial organization on cardiac bioenergetics
S. Ghosh, E.J. Crampin, E. Hanssen, V. Rajagopal (2017)
Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, 2696-2699

The cardiac Na+/K+ ATPase: An updated, thermodynamically consistent model
M. Pan, P.J. Gawthrop, J. Cursons, K. Tran, E.J. Crampin (2017)
Physiome Journal

Experimental and modelling evidence of shortening heat in cardiac muscle
K. Tran, J.-C. Han, E.J. Crampin, A.J. Taberner, D.S. Loiselle (2017)
Journal of Physiology 595, 6313–6326

Energy-based Analysis of Biomolecular Pathways
P.J. Gawthrop, E.J. Crampin (2017)
Proceedings of the Royal Society A 473:20160825

Bond Graph Modelling of Chemoelectrical Energy Transduction
P.J. Gawthrop, I. Siekmann, T. Kameneva, S. Saha, M.R. Ibbotson, E.J. Crampin (2017)
IET Systems Biology 11 (5), 127–138

Charge has a marked influence on hyperbranched polymer nanoparticle uptake in whole human blood
J.J. Glass, L. Chen, S. Alcantara, B.E. Rolfe, E.J. Crampin, K.J. Thurecht, R. De Rose, S.J. Kent (2017)
ACS Macro Letters 6 (6), 586–592

Changes in mitochondrial morphology and organisation can enhance energy supply from mitochondrial oxidative phosphorylation in diabetic cardiomyopathy
J.M. Jarosz, S. Ghosh, L. Delbridge, A. Petzer, A. Hickey, E.J. Crampin, E.G. Hansen, V. Rajagopal (2017)
American Journal of Physiology – Cell Physiology 312 (2), C190-C197


Systems analysis identifies miR-29b regulation of invasiveness in melanoma.
M.C. Andrews, J. Cursons, D.G. Hurley, M. Anaka, J.S. Cebon, A. Behren, E.J. Crampin (2016)
Molecular Cancer 15:72

Distributed gene expression modelling for exploring variability in epigenetic function.
D.M. Budden, E.J. Crampin (2016)
BMC Bioinformatics 17:446

Information theoretic inference of biological networks from continuous-valued data.
D.M. Budden, E.J. Crampin (2016)
BMC Systems Biology 10:89

Modelling modal gating of ion channels with hierarchical Markov models.
I. Siekmann, M. Fackrell, E.J. Crampin, P. Taylor (2016)
Proceedings of the Royal Society A 472: 20160122

Myocardial energetics is not compromised during compensated hypertrophy in the Dahl salt-sensitive rat model of hypertension.
K. Tran, J.-C. Han, A. Taberner, C. Barrett, E.J. Crampin, and D. Loiselle (2016)
American Journal of Physiology – Heart and Circulatory Physiology 311 (3) H563-H571

A framework to account for sedimentation and diffusion in particle-cell interactions.
J. Cui, M. Faria, M. Björnmalm, Y. Ju, T. Suma, S.T. Gunawan, J.J. Richardson, S. Bals, E.J. Crampin, F. Caruso (2016)
Langmuir 32 (47), 12394-12402

Modular Bond Graph Modelling and Analysis of Biomolecular Systems.
P.J. Gawthrop, E.J. Crampin (2016)
IET Systems Biology 10 (5) 187-201


Semantics-Based Composition of Integrated Cardiomyocyte Models Motivated by Real-World Use Cases.
M.L. Neal, B.E. Carlson, C.T. Thompson, R.C. James, K.G. Kim, K. Tran, E.J. Crampin, D.L. Cook, J.H. Gennari (2015)
PLoS ONE 10(12): e0145621

Spatially-transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis.
J. Cursons, C.E. Angel, D.G. Hurley, C.G. Print, P.R. Dunbar, M.D. Jacobs, E.J. Crampin (2015)
GigaScience.2015, 4:63
Supporting data: GigaScience Database

Network Network analysis of an in vitro model of androgen resistance in prostate cancer.
S. Detchokul, A. Elangovan, E.J. Crampin, M.J. Davis, A.G. Frauman (2015)
BMC Cancer 15:883

Hierarchical Bond Graph Modelling of Biochemical Networks.
P.J. Gawthrop, J. Cursons, E.J. Crampin (2015)
Proceedings of the Royal Society A 471: 20150642

Regulation of ERK-MAPK Signalling in Human Epidermis.
J. Cursons, J. Gao, D.G. Hurley, C.G. Print, P.R. Dunbar, M.D. Jacobs, E.J. Crampin (2015)
BMC Systems Biology 9:41

A spatial model of fluid recycling in the airways of the lung.
K.T. Sharp, E.J. Crampin, J. Sneyd (2015)
Journal of Theoretical Biology 382 198-215

Examination of the effects of heterogeneous organization of RyR clusters, myofibrils and mitochondria on Ca2+ release patterns in cardiomyocytes.
V. Rajagopal, G. Bass, C. Walker, D. Crossman, A. Petzer, I. Siekmann, A. Hickey, M. Hoshijima, M. Ellisman, E.J. Crampin, C. Soeller (2015)
PLoS Computational Biology 11(9): e1004417

Regulation of cardiac cellular bioenergetics: mechanisms and consequences.
K. Tran, D. Loiselle, E.J. Crampin (2015)
Physiological Reports, 3 (7), e12464

Modelling the conditional regulatory activity of methylated and bivalent promotors.
D.M. Budden, D.G. Hurley, E.J. Crampin (2015)
Epigenetics & Chromatin, 8:21

Stimulus-dependent differences in signalling regulate epithelial mesenchymal plasticity and change the effects of drugs in breast cancer cell lines.
J. Cursons, K.-J. Leuchowius, M. Waltham, E. Tomascovik-Crook, M. Foroutan, C. Bracken, A. Redfern, E.J. Crampin, I. Street, M.J. Davis, E.W. Thompson (2015)
Cell Communication and Signaling 13:26

NAIL, a software toolset for inferring, analyzing and visualizing regulatory networks.
D.G. Hurley, J. Cursons, Y. Wang, C.G. Print, E.J. Crampin (2015)
Bioinformatics 31(2) 277-8

Virtual reference environments: A simple way to make research reproducible.
D.G. Hurley, D.M. Budden, E.J. Crampin (2015)
Briefings in Bioinformatics 16 (5): 901-903

Predictive modeling of gene expression from transcriptional regulatory elements.
D.M. Budden, D.G. Hurley, E.J. Crampin (2015)
Briefings in Bioinformatics 16 (4): 616-628


D.M. Budden, D.G. Hurley, J. Cursons, J.F. Markham, M.J. Davis, E.J. Crampin (2014)
Predicting expression: The complementary power of histone modification and transcription factor binding data.
Epigenetics & Chromatin, 7:36 1-12

P.J. Gawthrop, E.J. Crampin (2014)
Energy-based analysis of biochemical cycles using bond graphs.
Proceedings of the Royal Society A 470:20140459

J. Sneyd, E.J. Crampin, D. Yule (2014)
Multiscale Modelling of Saliva Secretion.
Mathematical Biosciences 257 69-79

I. Siekmann, L. Wagner, D. Yule, J. Sneyd, E.J. Crampin (2014)
Statistical analysis of modal gating in ion channels.
Proceedings of the Royal Society A 470:20140030

O.J. Maclaren, J. Sneyd, E.J. Crampin (2014)
Reply to A. E. Hill, Y. Shachar-Hill (2013) J Membr Biol 246:665–667.
Journal of Membrane Biology 247:289–290


Y.K. Wang, Hurley D.G., Schnell S., Print C.G., E.J. Crampin (2013)
Integration of Steady-State and Temporal Gene Expression Data for the Inference of Gene Regulatory Networks.
PLoS ONE 8(8): e72103

Y.K. Wang, Cristin Print, E.J. Crampin (2013)
Biclustering reveals breast cancer tumour subgroups with common clinical features and improves prediction of disease recurrence.
BMC Genomics (2013), 14:102

O.J. Maclaren, J. Sneyd, E.J. Crampin (2013)
What do aquaporin knockout studies tell us about fluid transport in epithelia?
Journal of Membrane Biology 246:297–305

L.R. Bachtiar, C.P. Unsworth, R.D. Newcomb, E.J. Crampin (2013)
Multilayer Perceptron Classification of Unknown Volatile Chemicals from the Firing Rates of Insect Olfactory Sensory Neurons and Its Application to Biosensor Design.
Neural Computation 25 (1), 259-287


I. Siekmann, J. Sneyd, E.J. Crampin (2012)
MCMC can detect non-identifiable models.
Biophysical Journal 103 (11) 2275-2286

K. Patterson, M. Catalán, J. Melvin, D. Yule, E.J. Crampin, J. Sneyd (2012)
A Quantitative Analysis of Electrolyte Exchange in the Salivary Duct.
American Journal of Physiology – Gastrointestinal and Liver Physiology 

J.-C. Han, Andrew Taberner, Kenneth Tran, Soyeon Goo, David Nickerson, Martyn Nash, Poul Nielsen, E.J. Crampin, and Denis Loiselle (2012)
Comparison of the Gibbs and Suga Formulations of Cardiac Energetics: the Demise of “Isoefficiency”.
Journal of Applied Physiology 

J.-C. Han, Andrew Taberner, Kenneth Tran, David Nickerson, Martyn Nash, Poul Nielsen, E.J. Crampin, and Denis Loiselle (2012)
Relating Components of Pressure-Volume Area in Suga’s Formulation of Cardiac Energetics to Components of the Stress-Time Integral.
Journal of Applied Physiology 

I. Siekmann, L.E. Wagner II, D. Yule, E.J. Crampin, J. Sneyd (2012)
A kinetic model for type I and II IP3R accounting for mode changes.
Biophysical Journal 103 (4) 658-668

J.-C. Han, K Tran, AJ Taberner, DP Nickerson, RS Kirton, PMF Nielsen, M-L Ward, MP Nash, E.J. Crampin, DS Loiselle (2012)
Myocardial Twitch Duration and the Dependence of Oxygen Consumption on Pressure-Volume Area: Experiments and Modelling.
Journal of Physiology 590 (18) 4603-4622

L. Palk, J. Sneyd, K. Patterson, T.J. Shuttleworth, D.I. Yule, O. Maclaren, E.J. Crampin (2012)
Modelling the effects of calcium waves and oscillations on saliva secretion.
Journal of Theoretical Biology 305, 45-53

L. Wang, D. Hurley, W. Watkins, H. Araki, Y. Tamada, A. Muthukaruppan, L. Ranjard, E. Derkac, S. Imoto, S. Miyano, E.J. Crampin, C. Print (2012)
Cell Cycle Gene Networks Are Associated With Melanoma Prognosis.
PLoS ONE 7(4): e34247

O. Maclaren, Sneyd J., E.J. Crampin (2012)
Efficiency of primary saliva secretion: an analysis of parameter dependence in dynamic single-cell and acinus models, with application to aquaporin knockout studies.
Journal of Membrane Biology 245(1), 29-50

D. Hurley, H. Araki, Y. Tamada, B. Dunmore, D. Sanders, S. Humphreys, M. Affara, S. Imoto, K. Yasuda, Y. Tomiyasu, K. Tashiro, C. Savoie, V. Cho, S. Smith, S. Kuhara, S. Miyano, S. Charnock-Jones, E.J. Crampin, C. Print (2012)
Gene Network Inference and Visualisation Tools for Biologists: Application to New Human Transcriptome Datasets.
Nucleic Acids Research 40 (6) 2377-2398


L.R. Bachtiar, C. P. Unsworth, R. D. Newcomb, E.J. Crampin (2011)
Predicting Odorant Chemical Class from Odorant Descriptor Values With an Assembly of Multi-Layer Perceptrons.
33rd Annual International IEEE EMBS Conference 2011. Contributed paper 1064, 2756 – 2759

L.R. Bachtiar, C. P. Unsworth, R. D. Newcomb, E.J. Crampin (2011)
Using Artificial Neural Networks to Classify Unknown Volatile Chemicals from the Firings of Insect Olfactory Sensory Neurons.
33rd Annual International IEEE EMBS Conference 2011. Contributed paper 1047, 2752 – 2755

E.J. Crampin (2011)
Point: Counterpoint: Muscle lactate and H+ production do / do not have a 1:1 association in skeletal muscle.
Journal of Applied Physiology 110 (5), pp. 1495, 2011. (Invited letter to the Editor)

M.A. Mourão, J. Srividhya, P.E. McSharry, E.J. Crampin, S. Schnell (2011)
A Graphical User Interface for a Method to Infer Kinetics and Network Architecture (MIKANA).
PLoS ONE 6(11): e27534

H. Araki, D. Hurley, E.J. Crampin, C. Print, S. Kuhara (2011)
Gene Network Analysis and Application.
Seibutsu Butsuri (Biophysics) 51, 182-185 (in Japanese)

I. Siekmann, L.E. Wagner II, D. Yule, C. Fox, D. Bryant, E.J. Crampin, J. Sneyd (2011)
MCMC estimation of Markov models for ion channels.
Biophysical Journal 100 (8), 1919-1929, 2011

D. Waltemath, R. Adams, D. Beard, F. Bergmann, U. Bhalla, R. Britten, V. Chelliah, M. Cooling, J. Cooper, E.J. Crampin, A. Garny, S. Hoops, M. Hucka, P. Hunter, E. Klipp, C. Laibe, A. Miller, I. Moraru, D. Nickerson, P. Nielsen, M. Nikolski, S. Sahle, H. Sauro, H. Schmidt, J. Snoep, D. Tolle, O. Wolkenhauer, N. Le Novère (2011)
Minimum Information About a Simulation Experiment (MIASE).
PLoS Computational Biology 7(4): e1001122

M. Fink, S.A. Niederer, E.M. Cherry, F.H. Fenton, J.T. Koivumaki, G. Seemann, R. Thul, H. Zhang, F.B. Sachse, D.A. Beard, E.J. Crampin, N.P. Smith (2011)
Cardiac cell modelling: Observations from the heart of the cardiac physiome project.
Progress in Biophysics & Molecular Biology 104 (1-3), 2-21


J. Cursons, D. Hurley, C.E. Angel, R. Dunbar, E.J. Crampin, M.D. Jacobs (2010)
Inference of an in Situ Epidermal Intracellular Signaling Cascade.
32nd Annual International IEEE EMBS Conference 2010, Contributed Paper 906, 799 – 802

A. Sher, M. Cooling, B. Bethwaite, J. Tan, T. Peachey, C. Enticott, S. Garic, D. Gavaghan, D. Noble, D. Abramson, E.J. Crampin (2010)
A Global Sensitivity Tool for Cardiac Cell Modeling: Application to Ionic Current Balance and Hypertrophic Signaling.
32nd Annual International IEEE EMBS Conference 2010, Contributed Paper 1909, 1498 – 1502

A.K. Miller, Print C.G., Nielsen P.M.F., E.J. Crampin (2010)
A Bayesian Search for Transcriptional Motifs.
PLoS ONE 5(11): e13897

N.J. Warren, E.J. Crampin, M.H. Tawhai (2010)
The role of airway epithelium in replenishment of evaporated airway surface liquid from the human conducting airways.
Annals of Biomedical Engineering 38, 12, 3535-3549

L. Palk, J. Sneyd, T.J. Shuttleworth, D.I. Yule, E.J. Crampin (2010)
A dynamic model of saliva secretion.
Journal of Theoretical Biology 266, 625-640

P. Kohl, E.J. Crampin, T. A. Quinn, D. Noble (2010)
Systems Biology: an Approach.
Clinical Pharmacology and Therapeutics 88 1, 25-33

N.J. Warren, M.H. Tawhai, E.J. Crampin(2010)
The effect of intracellular calcium oscillations on fluid secretion in airway epithelium.
Journal of Theoretical Biology 265, 270-277

D. Loiselle, K. Tran, E.J. Crampin, N. Curtin (2010)
Why has Reversal of the Actin-Myosin Cross-Bridge Cycle Not Been Observed Experimentally?
Journal of Applied Physiology 108, 1465-1471

K. Tran, N.P. Smith, D.S. Loiselle, E.J. Crampin (2010)
A metabolite-sensitive, thermodynamically-constrained model of cardiac cross-bridge cycling: Implications for force development during ischemia.
Biophysical Journal 98, 267-276

J. Srividhya, M.A. Mourão, E.J. Crampin, S. Schnell (2010)
Enzyme catalyzed reactions: from experiments to computational mechanism reconstruction.
Computational Biology & Chemistry 34, 11-18

N.J. Warren, M.H. Tawhai, E.J. Crampin (2010)
Mathematical modelling of calcium wave propagation in airway epithelium: evidence for regenerative ATP release.
Experimental Physiology 95 (1), 232-249


S.M. Wimalaratne, Halstead M.D.B., Lloyd C.M., Cooling M.T., E.J. Crampin, Nielsen P.F. (2009)
A method for visualizing CellML models.
Bioinformatics 25, 3012-3019

S.M. Wimalaratne, M.D.B. Halstead, C.M. Lloyd, E.J. Crampin, P.F. Nielsen (2009)
Biophysical annotation and representation of CellML models.
Bioinformatics 25, 2263-2270

N.J. Warren, M.H. Tawhai, E.J. Crampin (2009)
A Mathematical Model of Calcium-Induced Fluid Secretion in Airway Epithelium.
Journal of Theoretical Biology 259 (4), 837-849

S.M. Wimalaratne, M.D.B. Halstead, C.M. Lloyd, M.T. Cooling, E.J. Crampin, P.F. Nielsen (2009)
Facilitating modularity and reuse: Guidelines for structuring CellML 1.1 models by isolating common biophysical concepts.
Experimental Physiology, 94 (5), 472-485

M.T. Cooling, E.J. Crampin, P.J. Hunter (2009)
Physiome Mark-up Languages for Systems Biology: Model Modularization and Re-use.
In Systems Biomedicine, D. Lauffenburger and E. Liu (eds.), Elsevier

M.T. Cooling, Hunter P.J., E.J. Crampin (2009)
Sensitivity of NFAT cycling to cytosolic calcium: Implications for hypertrophic signalling in cardiac myocytes.
Biophysical Journal, 96 (6) 2095-2104

K. Tran, Smith N.P., Loiselle D.S., E.J. Crampin (2009)
A Thermodynamic Model of the Cardiac Sarcoplasmic/ Endoplasmic Reticulum Ca2+ (SERCA) pump.
Biophysical Journal, 96 (5) 2029-2042


P.J. Hunter, E.J. Crampin, Nielsen P.M.F. (2008)
Bioinformatics and the Physiome Project.
Briefings in Bioinformatics 9 (4), 333-343

J. Terkildsen, Niederer S.A., E.J. Crampin, Hunter P.J., Smith N.P. (2008)
Using Physiome standards to couple cellular functions for cardiac excitation-contraction.
Experimental Physiology, 93 (7), 919-929

D.S. Loiselle, E.J. Crampin, Niederer S.A., Smith N.P., Barclay C.J. (2008)
Energetic consequences of mechanical loads.
Progress in Biophysics & Molecular Biology, 97, 348-366 [correction printed vol 99 p 114]

M. Cooling, Hunter P.J., E.J. Crampin (2008)
Modelling biological modularity with CellML.
IET Systems Biology, 2 (2), 73-79


J. Terkildsen, E.J. Crampin, Smith N.P. (2007)
The balance between inactivation and activation of the Na+-K+ pump underlies the triphasic accumulation of extracellular K+ ions during myocardial ischemia.
American Journal of Physiology – Heart and Circulatory Physiology 293, H3036-H3045

M. Cooling, Hunter P.J., E.J. Crampin (2007)
Modelling hypertrophic IP3 transients in the cardiac myocyte.
Biophysical Journal, 93, 3421-3433

E. Gin, E.J. Crampin, Brown D.A., Shuttleworth T.J., Yule D.I., Sneyd J. (2007)
A mathematical model of fluid secretion from a parotid acinar cell.
Journal of Theoretical Biology 248, 64-80

N.P. Smith, E.J. Crampin, Niederer S.A., Bassingthwaighte J.B., Beard D.A. (2007)
Computational biology of cardiac myocytes: Proposed standards for the Physiome.
Journal of Experimental Biology, 210 (9), 1576-1583

J. Srividhya, E.J. Crampin, McSharry P.E., Schnell S. (2007)
Reconstructing biochemical pathways from time course data.
Proteomics 7 (6), 828-838


E.J. Crampin (2006)
System Identification Challenges from Systems Biology;
in Proceedings 14th IFAC Symposium on System Identification, Newcastle, Australia

J. Wildenhain, E.J. Crampin (2006)
Reconstructing gene regulatory networks: from random to scale-free connectivity.
IEE Systems Biology 153 (4), 247-256

E.J. Crampin, Smith N.P. (2006)
A dynamic model of excitation-contraction coupling during acidosis in cardiac ventricular myocytes.
Biophysical Journal 90, 3074-3090

I. Barrass, E.J. Crampin, Maini P.K. (2006)
Mode transitions in a model reaction-diffusion system driven by domain growth and noise.
Bulletin of Mathematical Biology 68 (5), 981-995

E.J. Crampin, Smith N.P., Langham A.E., Clayton R.H., Orchard C.H. (2006)
Acidosis in models of cardiac ventricular myocytes.
Philosophical Transactions of the Royal Society of London, Series A 364 (1842), 1171-1186


N. Le Novere, Finney A., Hucka M., Bhalla U., Campagne F., Collado-Vides J., E.J. Crampin, Halstead M., Klipp E., Mendes P., Nielsen P., Sauro H., Shapiro B., Snoep J., Spence H., Wanner B. (2005)
Minimum information requested in the annotation of biological models (MIRIAM).
Nature Biotechnology 23(12), 1509-1515


E.J. Crampin, Smith N.P., Hunter P.J. (2004)
Multi-scale modelling and the IUPS Physiome Project.
Journal of Molecular Histology 35 (7), 707-714

E.J. Crampin, Schnell S., McSharry P.E. (2004)
Mathematical and computational techniques to deduce complex biochemical reaction mechanisms.
Progress in Biophysics and Molecular Biology 86 (1), 77-112

E.J. Crampin, Schnell, S. (2004)
New approaches to modelling and analysis of biochemical reactions, pathways and networks (Editorial).
Progress in Biophysics & Molecular Biology, 86 (1), 1-4

N.P. Smith, Nickerson D.P., E.J. Crampin, Hunter P.J. (2004)
Multiscale computational modelling of the heart.
Acta Numerica 13, 371-431

E.J. Crampin, McSharry P.E., Schnell S. (2004)
Extracting biochemical reaction kinetics from time series data.
Lecture Notes in AI 3214, 329-336

N.P. Smith, E.J. Crampin (2004)
Development of models of active ion transport for whole-cell modelling: Cardiac sodium-potassium pump as a case study.
Progress in Biophysics & Molecular Biology 85 (2-3), 387-405

N.P. Smith, E.J. Crampin (2004)
Modelling cellular and tissue function (Editorial).
Progress in Biophysics & Molecular Biology, 85 (2-3), 117-119

E.J. Crampin, Halstead M., Hunter P., Nielsen P., Noble D., Smith N., Tawhai M. (2004)
Computational Physiology and the Physiome Project.
Experimental Physiology 89 (1), 1-26

1997 — 2003

P.K. Maini, E.J. Crampin, Madzvamuse A., Wathen A.J., Thomas R.D.K. (2003)
Implications of domain growth in morphogenesis.
In Mathematical Modelling & Computing in Biology and Medicine, Proceedings 5th ECMTB Conference (V. Cappasso, Ed.), 67-73

P.E. McSharry, E.J. Crampin (2002)
Identifying statistically significant patterns in gene expression data (preprint).

E.J. Crampin, Hackborn W.W., Maini P.K. (2002)
Pattern formation in reaction-diffusion models with nonuniform domain growth.
Bulletin of Mathematical Biology 64 (4), 747-769

E.J. Crampin, Gaffney E.A., Maini P.K. (2002)
Mode doubling and tripling in reaction-diffusion patterns on growing domains: A piecewise linear model.
Journal of Mathematical Biology 44 107-128

E.J. Crampin, Maini P.K. (2001)
Reaction-diffusion models for biological pattern formation.
Methods and Applications of Analysis 8 (3), 415-428

E.J. Crampin, Maini P.K. (2001)
Modelling biological pattern formation: The role of domain growth.
Comments on Theoretical Biology 6 (3), 229-249

E.J. Crampin (2000)
Reaction-diffusion patterns on growing domains
DPhil Thesis, University of Oxford
Bodleian Library record
Download thesis here

E.J. Crampin, Gaffney E.A., Maini P.K. (1999)
Reaction and diffusion on growing domains: Scenarios for robust pattern formation.
Bulletin of Mathematical Biology 61 (6), 1093

C. Nguyen-Van-Huong, E.J. Crampin, Laval J.-Y., Dubon A. (1997)
Incorporation of silver in DyBa2Cu3O7-δ ceramics: Correlation between superconducting properties and microstructure.
Superconductor Science and Technology 10 (2), 85-94