Works by Crampin, Edmund J.

Results: 38

Virtual Reference Environments: a simple way to make research reproducible.

Published in:

Briefings in Bioinformatics, 2015, v. 16, n. 5, p. 901, doi. 10.1093/bib/bbu043

By:

Hurley, Daniel G.;
Budden, David M.;
Crampin, Edmund J.

Publication type:

Article

Predictive modelling of gene expression from transcriptional regulatory elements.

Published in:

Briefings in Bioinformatics, 2015, v. 16, n. 4, p. 616, doi. 10.1093/bib/bbu034

By:

Budden, David M.;
Hurley, Daniel G.;
Crampin, Edmund J.

Publication type:

Article

Bioinformatics, multiscale modeling and the IUPS Physiome Project.

Published in:

Briefings in Bioinformatics, 2008, v. 9, n. 4, p. 333, doi. 10.1093/bib/bbn024

By:

Hunter, Peter J.;
Crampin, Edmund J.;
Nielsen, Paul M. F.

Publication type:

Article

Assessing Cardiomyocyte Excitation-Contraction Coupling Site Detection From Live Cell Imaging Using a Structurally-Realistic Computational Model of Calcium Release.

Published in:

Frontiers in Physiology, 2019, p. 1, doi. 10.3389/fphys.2019.01263

By:

Ladd, David;
Tilūnaitė, Agnė;
Roderick, H. Llewelyn;
Soeller, Christian;
Crampin, Edmund J.;
Rajagopal, Vijay

Publication type:

Article

Information theoretic approaches for inference of biological networks from continuous-valued data.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0331-y

By:

Budden, David M.;
Crampin, Edmund J.

Publication type:

Article

Regulation of ERK-MAPK signaling in human epidermis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 1, doi. 10.1186/s12918-015-0187-6

By:

Cursons, Joseph;
Gao, Jerry;
Hurley, Daniel G.;
Print, Cristin G.;
Dunbar, P. Rod;
Jacobs, Marc D.;
Crampin, Edmund J.

Publication type:

Article

Regulation of ERK-MAPK signaling in human epidermis.

Published in:

BMC Systems Biology, 2015, v. 9, n. 1, p. 41, doi. 10.1186/s12918-015-0187-6

By:

Cursons, Joseph;
Gao, Jerry;
Hurley, Daniel G.;
Print, Cristin G.;
Dunbar, P. Rod;
Jacobs, Marc D.;
Crampin, Edmund J.

Publication type:

Article

Biclustering reveals breast cancer tumour subgroups with common clinical features and improves prediction of disease recurrence.

Published in:

BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-102

By:

Wang, Yi Kan;
Print, Cristin G.;
Crampin, Edmund J.

Publication type:

Article

Examination of the Effects of Heterogeneous Organization of RyR Clusters, Myofibrils and Mitochondria on Ca<sup>2+</sup> Release Patterns in Cardiomyocytes.

Published in:

PLoS Computational Biology, 2015, v. 11, n. 9, p. 1, doi. 10.1371/journal.pcbi.1004417

By:

Rajagopal, Vijay;
Bass, Gregory;
Walker, Cameron G.;
Crossman, David J.;
Petzer, Amorita;
Hickey, Anthony;
Siekmann, Ivo;
Hoshijima, Masahiko;
Ellisman, Mark H.;
Crampin, Edmund J.;
Soeller, Christian

Publication type:

Article

Minimum Information About a Simulation Experiment (MIASE).

Published in:

PLoS Computational Biology, 2011, v. 7, n. 4, p. 1, doi. 10.1371/journal.pcbi.1001122

By:

Waltemath, Dagmar;
Adams, Richard;
Beard, Daniel A.;
Bergmann, Frank T.;
Bhalla, Upinder S.;
Britten, Randall;
Chelliah, Vijayalakshmi;
Cooling, Michael T.;
Cooper, Jonathan;
Crampin, Edmund J.;
Garny, Alan;
Hoops, Stefan;
Hucka, Michael;
Hunter, Peter;
Klipp, Edda;
Laibe, Camille;
Miller, Andrew K.;
Moraru, Ion;
Nickerson, David;
Nielsen, Poul

Publication type:

Article

Mode Transitions in a Model Reaction-Diffusion System Driven by Domain Growth and Noise.

Published in:

Bulletin of Mathematical Biology, 2006, v. 68, n. 5, p. 981, doi. 10.1007/s11538-006-9106-8

By:

Barrass, Iain;
Crampin, Edmund J.;
Maini, Philip K.

Publication type:

Article

Analysing and simulating energy-based models in biology using BondGraphTools.

Published in:

European Physical Journal E -- Soft Matter, 2021, v. 44, n. 12, p. 1, doi. 10.1140/epje/s10189-021-00152-4

By:

Cudmore, Peter;
Pan, Michael;
Gawthrop, Peter J.;
Crampin, Edmund J.

Publication type:

Article

Modelling the conditional regulatory activity of methylated and bivalent promoters.

Published in:

Epigenetics & Chromatin, 2015, v. 8, n. 1, p. 1, doi. 10.1186/s13072-015-0013-9

By:

Budden, David M.;
Hurley, Daniel G.;
Crampin, Edmund J.

Publication type:

Article

Predicting expression: the complementary power of histone modification and transcription factor binding data.

Published in:

Epigenetics & Chromatin, 2014, v. 7, n. 1, p. 1, doi. 10.1186/1756-8935-7-36

By:

Budden, David M.;
Hurley, Daniel G.;
Cursons, Joseph;
Markham, John F.;
Davis, Melissa J.;
Crampin, Edmund J.

Publication type:

Article

Mathematical modelling indicates that lower activity of the haemostatic system in neonates is primarily due to lower prothrombin concentration.

Published in:

Scientific Reports, 2019, v. 9, n. 1, p. 1, doi. 10.1038/s41598-019-40435-7

By:

Siekmann, Ivo;
Bjelosevic, Stefan;
Landman, Kerry;
Monagle, Paul;
Ignjatovic, Vera;
Crampin, Edmund J.

Publication type:

Article

Insights on the impact of mitochondrial organisation on bioenergetics in high-resolution computational models of cardiac cell architecture.

Published in:

PLoS Computational Biology, 2018, v. 14, n. 12, p. 1, doi. 10.1371/journal.pcbi.1006640

By:

Ghosh, Shouryadipta;
Tran, Kenneth;
Delbridge, Lea M. D.;
Hickey, Anthony J. R.;
Hanssen, Eric;
Crampin, Edmund J.;
Rajagopal, Vijay

Publication type:

Article

A semantics, energy-based approach to automate biomodel composition.

Published in:

PLoS ONE, 2022, v. 17, n. 6, p. 1, doi. 10.1371/journal.pone.0269497

By:

Shahidi, Niloofar;
Pan, Michael;
Tran, Kenneth;
Crampin, Edmund J.;
Nickerson, David P.

Publication type:

Article

Hierarchical semantic composition of biosimulation models using bond graphs.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 5, p. 1, doi. 10.1371/journal.pcbi.1008859

By:

Shahidi, Niloofar;
Pan, Michael;
Safaei, Soroush;
Tran, Kenneth;
Crampin, Edmund J.;
Nickerson, David P.

Publication type:

Article

Reconstructing biochemical pathways from time course data.

Published in:

Proteomics, 2007, v. 7, n. 6, p. 828, doi. 10.1002/pmic.200600428

By:

Srividhya, Jeyaraman;
Crampin, Edmund J.;
McSharry, Patrick E.;
Schnell, Santiago

Publication type:

Article

NAIL, a software toolset for inferring, analyzing and visualizing regulatory networks.

Published in:

Bioinformatics, 2015, v. 31, n. 2, p. 277, doi. 10.1093/bioinformatics/btu612

By:

Hurley, Daniel G.;
Cursons, Joseph;
Wang, Yi Kan;
Budden, David M.;
Print, Cristin G.;
Crampin, Edmund J.

Publication type:

Article

Gene network inference and visualization tools for biologists: application to new human transcriptome datasets.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 6, p. 2377, doi. 10.1093/nar/gkr902

By:

Hurley, Daniel;
Araki, Hiromitsu;
Tamada, Yoshinori;
Dunmore, Ben;
Sanders, Deborah;
Humphreys, Sally;
Affara, Muna;
Imoto, Seiya;
Yasuda, Kaori;
Tomiyasu, Yuki;
Tashiro, Kosuke;
Savoie, Christopher;
Cho, Vicky;
Smith, Stephen;
Kuhara, Satoru;
Miyano, Satoru;
Charnock-Jones, D. Stephen;
Crampin, Edmund J.;
Print, Cristin G.

Publication type:

Article

Modular assembly of dynamic models in systems biology.

Published in:

PLoS Computational Biology, 2021, v. 17, n. 10, p. 1, doi. 10.1371/journal.pcbi.1009513

By:

Pan, Michael;
Gawthrop, Peter J.;
Cursons, Joseph;
Crampin, Edmund J.

Publication type:

Article

Using Physiome standards to couple cellular functions for rat cardiac excitation-contraction.

Published in:

Experimental Physiology, 2008, v. 93, n. 7, p. 919, doi. 10.1113/expphysiol.2007.041871

By:

Terkildsen, Jonna R.;
Niederer, Steven;
Crampin, Edmund J.;
Hunter, Peter;
Smith, Nicolas P.

Publication type:

Article

Computational physiology and the physiome project.

Published in:

Experimental Physiology, 2004, v. 89, n. 1, p. 1, doi. 10.1113/expphysiol.2003.026740

By:

Crampin, Edmund J.;
Halstead, Matthew;
Hunter, Peter;
Nielsen, Poul;
Noble, Denis;
Smith, Nicolas;
Tawhai, Merryn

Publication type:

Article

Spatially transformed fluorescence image data for ERK-MAPK and selected proteins within human epidermis.

Published in:

GigaScience, 2015, v. 4, p. 1, doi. 10.1186/s13742-015-0102-5

By:

Cursons, Joseph;
Angel, Catherine E.;
Hurley, Daniel G.;
Print, Cristin G.;
Dunbar, P. Rod;
Jacobs, Marc D.;
Crampin, Edmund J.

Publication type:

Article

Insights From Computational Modeling Into the Contribution of Mechano-Calcium Feedback on the Cardiac End-Systolic Force-Length Relationship.

Published in:

Frontiers in Physiology, 2020, v. 11, p. 1, doi. 10.3389/fphys.2020.00587

By:

Guidry, Megan E.;
Nickerson, David P.;
Crampin, Edmund J.;
Nash, Martyn P.;
Loiselle, Denis S.;
Tran, Kenneth

Publication type:

Article

Semantics-Based Composition of Integrated Cardiomyocyte Models Motivated by Real-World Use Cases.

Published in:

PLoS ONE, 2015, v. 10, n. 12, p. 1, doi. 10.1371/journal.pone.0145621

By:

Neal, Maxwell L.;
Carlson, Brian E.;
Thompson, Christopher T.;
James, Ryan C.;
Kim, Karam G.;
Tran, Kenneth;
Crampin, Edmund J.;
Cook, Daniel L.;
Gennari, John H.

Publication type:

Article

Integration of Steady-State and Temporal Gene Expression Data for the Inference of Gene Regulatory Networks.

Published in:

PLoS ONE, 2013, v. 8, n. 8, p. 1, doi. 10.1371/journal.pone.0072103

By:

Wang, Yi Kan;
Hurley, Daniel G.;
Schnell, Santiago;
Print, Cristin G.;
Crampin, Edmund J.

Publication type:

Article

Cell Cycle Gene Networks Are Associated with Melanoma Prognosis.

Published in:

PLoS ONE, 2012, v. 7, n. 4, p. 1, doi. 10.1371/journal.pone.0034247

By:

Li Wang;
Hurley, Daniel G.;
Watkins, Wendy;
Araki, Hiromitsu;
Yoshinori Tamada;
Muthukaruppan, Anita;
Ranjard, Louis;
Derkac, Eliane;
Imoto, Seiya;
Miyano, Satoru;
Crampin, Edmund J.;
Print, Cristin G.

Publication type:

Article

A Graphical User Interface for a Method to Infer Kinetics and Network Architecture (MIKANA).

Published in:

PLoS ONE, 2011, v. 6, n. 11, p. 1, doi. 10.1371/journal.pone.0027534

By:

Mourão, Márcio A.;
Srividhya, Jeyaraman;
McSharry, Patrick E.;
Crampin, Edmund J.;
Schnell, Santiago

Publication type:

Article

A Bayesian Search for Transcriptional Motifs.

Published in:

PLoS ONE, 2010, v. 5, n. 11, p. 1, doi. 10.1371/journal.pone.0013897

By:

Miller, Andrew K.;
Print, Cristin G.;
Nielsen, Poul M. F.;
Crampin, Edmund J.

Publication type:

Article

Distributed gene expression modelling for exploring variability in epigenetic function.

Published in:

BMC Bioinformatics, 2016, v. 17, p. 1, doi. 10.1186/s12859-016-1313-1

By:

Budden, David M.;
Crampin, Edmund J.

Publication type:

Article

Systems analysis identifies miR-29b regulation of invasiveness in melanoma.

Published in:

Molecular Cancer, 2016, v. 15, p. 1, doi. 10.1186/s12943-016-0554-y

By:

Andrews, Miles C.;
Cursons, Joseph;
Hurley, Daniel G.;
Anaka, Matthew;
Cebon, Jonathan S.;
Behren, Andreas;
Crampin, Edmund J.

Publication type:

Article

Minimum information requested in the annotation of biochemical models (MIRIAM).

Published in:

Nature Biotechnology, 2005, v. 23, n. 12, p. 1509, doi. 10.1038/nbt1156

By:

Novère, Nicolas Le;
Finney, Andrew;
Hucka, Michael;
Bhalla, Upinder S.;
Campagne, Fabien;
Collado-Vides, Julio;
Crampin, Edmund J.;
Halstead, Matt;
Klipp, Edda;
Mendes, Pedro;
Nielsen, Poul;
Sauro, Herbert;
Shapiro, Bruce;
Snoep, Jacky L.;
Spence, Hugh D.;
Wanner, Barry L.

Publication type:

Article

Network analysis of an in vitro model of androgen-resistance in prostate cancer.

Published in:

2015

By:

Detchokul, Sujitra;
Elangovan, Aparna;
Crampin, Edmund J.;
Davis, Melissa J.;
Frauman, Albert G.

Publication type:

journal article

Bond graph modelling of chemoelectrical energy transduction.

Published in:

IET Systems Biology (Wiley-Blackwell), 2017, v. 11, n. 5, p. 127, doi. 10.1049/iet-syb.2017.0006

By:

Gawthrop, Peter J.;
Siekmann, Ivo;
Kameneva, Tatiana;
Saha, Susmita;
Ibbotson, Michael R.;
Crampin, Edmund J.

Publication type:

Article

Modular bond-graph modelling and analysis of biomolecular systems.

Published in:

IET Systems Biology (Wiley-Blackwell), 2016, v. 10, n. 5, p. 187, doi. 10.1049/iet-syb.2015.0083

By:

Gawthrop, Peter J.;
Crampin, Edmund J.

Publication type:

Article

Stimulus-dependent differences in signalling regulate epithelial-mesenchymal plasticity and change the effects of drugs in breast cancer cell lines.

Published in:

Cell Communication & Signaling, 2015, v. 13, n. 1, p. 1, doi. 10.1186/s12964-015-0106-x

By:

Cursons, Joseph;
Leuchowius, Karl-Johan;
Waltham, Mark;
Tomaskovic-Crook, Eva;
Foroutan, Momeneh;
Bracken, Cameron P.;
Redfern, Andrew;
Crampin, Edmund J.;
Street, Ian;
Davis, Melissa J.;
Thompson, Erik W.

Publication type:

Article