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Items: 1 to 50 of 85

1.

Slow Recovery of Excitability Increases Ventricular Fibrillation Risk as Identified by Emulation.

Lawson BA, Burrage K, Burrage P, Drovandi CC, Bueno-Orovio A.

Front Physiol. 2018 Aug 28;9:1114. doi: 10.3389/fphys.2018.01114. eCollection 2018.

2.

Steered molecular dynamics characterization of the elastic modulus and deformation mechanisms of single natural tropocollagen molecules.

Tang M, Li T, Pickering E, Gandhi NS, Burrage K, Gu Y.

J Mech Behav Biomed Mater. 2018 Oct;86:359-367. doi: 10.1016/j.jmbbm.2018.07.009. Epub 2018 Jul 5.

PMID:
30015207
3.

Correction: Experimentally-Based Computational Investigation into Beat-To-Beat Variability in Ventricular Repolarization and Its Response to Ionic Current Inhibition.

Pueyo E, Dangerfield CE, Britton OJ, Virág L, Kistamás K, Szentandrássy N, Jost N, Varró A, Nánási PP, Burrage K, Rodríguez B.

PLoS One. 2018 May 17;13(5):e0197871. doi: 10.1371/journal.pone.0197871. eCollection 2018.

4.

From ionic to cellular variability in human atrial myocytes: an integrative computational and experimental study.

Muszkiewicz A, Liu X, Bueno-Orovio A, Lawson BAJ, Burrage K, Casadei B, Rodriguez B.

Am J Physiol Heart Circ Physiol. 2018 May 1;314(5):H895-H916. doi: 10.1152/ajpheart.00477.2017. Epub 2017 Dec 22.

5.

Unlocking data sets by calibrating populations of models to data density: A study in atrial electrophysiology.

Lawson BAJ, Drovandi CC, Cusimano N, Burrage P, Rodriguez B, Burrage K.

Sci Adv. 2018 Jan 10;4(1):e1701676. doi: 10.1126/sciadv.1701676. eCollection 2018 Jan.

6.

Validation and models in computational biomedical sciences: Philosophy, science, engineering.

Carusi A, Rodriguez B, Burrage K.

Prog Biophys Mol Biol. 2017 Oct;129:1-2. doi: 10.1016/j.pbiomolbio.2017.08.005. No abstract available.

7.

Environmental factors in breast cancer invasion: a mathematical modelling review.

Simmons A, Burrage PM, Nicolau DV Jr, Lakhani SR, Burrage K.

Pathology. 2017 Feb;49(2):172-180. doi: 10.1016/j.pathol.2016.11.004. Epub 2017 Jan 9. Review.

PMID:
28081961
8.

Heterogeneous nanomechanical properties of type I collagen in longitudinal direction.

Tang M, Li T, Gandhi NS, Burrage K, Gu Y.

Biomech Model Mechanobiol. 2017 Jun;16(3):1023-1033. doi: 10.1007/s10237-016-0870-6. Epub 2017 Jan 7.

PMID:
28064404
9.

Sampling methods for exploring between-subject variability in cardiac electrophysiology experiments.

Drovandi CC, Cusimano N, Psaltis S, Lawson BA, Pettitt AN, Burrage P, Burrage K.

J R Soc Interface. 2016 Aug;13(121). pii: 20160214. doi: 10.1098/rsif.2016.0214.

10.

Rabbit-specific computational modelling of ventricular cell electrophysiology: Using populations of models to explore variability in the response to ischemia.

Gemmell P, Burrage K, Rodríguez B, Quinn TA.

Prog Biophys Mol Biol. 2016 Jul;121(2):169-84. doi: 10.1016/j.pbiomolbio.2016.06.003. Epub 2016 Jun 16.

11.

Anomalous Diffusion in Cardiac Tissue as an Index of Myocardial Microstructure.

Bueno-Orovio A, Teh I, Schneider JE, Burrage K, Grau V.

IEEE Trans Med Imaging. 2016 Sep;35(9):2200-2207. doi: 10.1109/TMI.2016.2548503. Epub 2016 May 2.

PMID:
27164578
12.

Corrigendum for "Modelling biochemical reaction systems by stochastic differential equations with reflection".

Niu Y, Burrage K, Chen L.

J Theor Biol. 2016 May 7;396:207-9. doi: 10.1016/j.jtbi.2016.03.023. Epub 2016 Mar 23. No abstract available.

PMID:
27056105
13.

Experimentally-Based Computational Investigation into Beat-To-Beat Variability in Ventricular Repolarization and Its Response to Ionic Current Inhibition.

Pueyo E, Dangerfield CE, Britton OJ, Virág L, Kistamás K, Szentandrássy N, Jost N, Varró A, Nánási PP, Burrage K, Rodríguez B.

PLoS One. 2016 Mar 28;11(3):e0151461. doi: 10.1371/journal.pone.0151461. eCollection 2016. Erratum in: PLoS One. 2018 May 17;13(5):e0197871.

14.

Modelling biochemical reaction systems by stochastic differential equations with reflection.

Niu Y, Burrage K, Chen L.

J Theor Biol. 2016 May 7;396:90-104. doi: 10.1016/j.jtbi.2016.02.010. Epub 2016 Feb 23. Erratum in: J Theor Biol. 2016 May 7;396:207-9.

PMID:
26920245
15.

Variability in cardiac electrophysiology: Using experimentally-calibrated populations of models to move beyond the single virtual physiological human paradigm.

Muszkiewicz A, Britton OJ, Gemmell P, Passini E, Sánchez C, Zhou X, Carusi A, Quinn TA, Burrage K, Bueno-Orovio A, Rodriguez B.

Prog Biophys Mol Biol. 2016 Jan;120(1-3):115-27. doi: 10.1016/j.pbiomolbio.2015.12.002. Epub 2015 Dec 14.

16.

On the Order of the Fractional Laplacian in Determining the Spatio-Temporal Evolution of a Space-Fractional Model of Cardiac Electrophysiology.

Cusimano N, Bueno-Orovio A, Turner I, Burrage K.

PLoS One. 2015 Dec 2;10(12):e0143938. doi: 10.1371/journal.pone.0143938. eCollection 2015.

17.

In Vivo and In Silico Investigation Into Mechanisms of Frequency Dependence of Repolarization Alternans in Human Ventricular Cardiomyocytes.

Zhou X, Bueno-Orovio A, Orini M, Hanson B, Hayward M, Taggart P, Lambiase PD, Burrage K, Rodriguez B.

Circ Res. 2016 Jan 22;118(2):266-78. doi: 10.1161/CIRCRESAHA.115.307836. Epub 2015 Nov 24.

18.

Stochastic linear multistep methods for the simulation of chemical kinetics.

Barrio M, Burrage K, Burrage P.

J Chem Phys. 2015 Feb 14;142(6):064101. doi: 10.1063/1.4907008.

PMID:
25681881
19.

Multi-scale approach for simulating time-delay biochemical reaction systems.

Niu Y, Burrage K, Zhang C.

IET Syst Biol. 2015 Feb;9(1):31-8. doi: 10.1049/iet-syb.2013.0023.

PMID:
25569862
20.

Stochastic simulation in systems biology.

Székely T Jr, Burrage K.

Comput Struct Biotechnol J. 2014 Oct 30;12(20-21):14-25. doi: 10.1016/j.csbj.2014.10.003. eCollection 2014 Nov. Review.

21.

Application of stochastic phenomenological modelling to cell-to-cell and beat-to-beat electrophysiological variability in cardiac tissue.

Walmsley J, Mirams GR, Pitt-Francis J, Rodriguez B, Burrage K.

J Theor Biol. 2015 Jan 21;365:325-36. doi: 10.1016/j.jtbi.2014.10.029. Epub 2014 Nov 4.

22.

Stochastic dynamics of interacting haematopoietic stem cell niche lineages.

Székely T Jr, Burrage K, Mangel M, Bonsall MB.

PLoS Comput Biol. 2014 Sep 4;10(9):e1003794. doi: 10.1371/journal.pcbi.1003794. eCollection 2014 Sep.

23.

Efficient simulation of stochastic chemical kinetics with the Stochastic Bulirsch-Stoer extrapolation method.

Székely T Jr, Burrage K, Zygalakis KC, Barrio M.

BMC Syst Biol. 2014 Jun 18;8:71. doi: 10.1186/1752-0509-8-71.

24.

Fractional diffusion models of cardiac electrical propagation: role of structural heterogeneity in dispersion of repolarization.

Bueno-Orovio A, Kay D, Grau V, Rodriguez B, Burrage K.

J R Soc Interface. 2014 Aug 6;11(97):20140352. doi: 10.1098/rsif.2014.0352.

25.

Post-transcriptional regulation in the nucleus and cytoplasm: study of mean time to threshold (MTT) and narrow escape problem.

Holcman D, Dao Duc K, Jones A, Byrne H, Burrage K.

J Math Biol. 2015 Mar;70(4):805-28. doi: 10.1007/s00285-014-0782-y. Epub 2014 Apr 8.

PMID:
24710662
26.

Quantitative study of the effect of tissue microstructure on contraction in a computational model of rat left ventricle.

Carapella V, Bordas R, Pathmanathan P, Lohezic M, Schneider JE, Kohl P, Burrage K, Grau V.

PLoS One. 2014 Apr 2;9(4):e92792. doi: 10.1371/journal.pone.0092792. eCollection 2014.

27.

Population of computational rabbit-specific ventricular action potential models for investigating sources of variability in cellular repolarisation.

Gemmell P, Burrage K, Rodriguez B, Quinn TA.

PLoS One. 2014 Feb 28;9(2):e90112. doi: 10.1371/journal.pone.0090112. eCollection 2014.

28.

Studying the role of lipid rafts on protein receptor bindings with cellular automata.

Haack F, Burrage K, Redmer R, Uhrmacher AM.

IEEE/ACM Trans Comput Biol Bioinform. 2013 May-Jun;10(3):760-70. doi: 10.1109/TCBB.2013.40.

PMID:
24091408
29.

Stability and convergence of an implicit numerical method for the space and time fractional Bloch-Torrey equation.

Yu Q, Liu F, Turner I, Burrage K.

Philos Trans A Math Phys Eng Sci. 2013 Apr 1;371(1990):20120150. doi: 10.1098/rsta.2012.0150. Print 2013 May 13.

30.

mRNA expression levels in failing human hearts predict cellular electrophysiological remodeling: a population-based simulation study.

Walmsley J, Rodriguez JF, Mirams GR, Burrage K, Efimov IR, Rodriguez B.

PLoS One. 2013;8(2):e56359. doi: 10.1371/journal.pone.0056359. Epub 2013 Feb 20.

31.

Inferring diffusion in single live cells at the single-molecule level.

Robson A, Burrage K, Leake MC.

Philos Trans R Soc Lond B Biol Sci. 2012 Dec 24;368(1611):20120029. doi: 10.1098/rstb.2012.0029. Print 2013 Feb 5. Review.

32.

A higher-order numerical framework for stochastic simulation of chemical reaction systems.

Székely T Jr, Burrage K, Erban R, Zygalakis KC.

BMC Syst Biol. 2012 Jul 15;6:85. doi: 10.1186/1752-0509-6-85.

33.

Anomalous diffusion and multifractional Brownian motion: simulating molecular crowding and physical obstacles in systems biology.

Marquez-Lago TT, Leier A, Burrage K.

IET Syst Biol. 2012 Aug;6(4):134-42. doi: 10.1049/iet-syb.2011.0049.

PMID:
23039694
34.

Modeling ion channel dynamics through reflected stochastic differential equations.

Dangerfield CE, Kay D, Burrage K.

Phys Rev E Stat Nonlin Soft Matter Phys. 2012 May;85(5 Pt 1):051907. Epub 2012 May 15.

PMID:
23004788
35.

Bridging experiments, models and simulations: an integrative approach to validation in computational cardiac electrophysiology.

Carusi A, Burrage K, Rodríguez B.

Am J Physiol Heart Circ Physiol. 2012 Jul 15;303(2):H144-55. doi: 10.1152/ajpheart.01151.2011. Epub 2012 May 11. Review.

36.

Comparison of continuous and discrete stochastic ion channel models.

Dangerfield CE, Kay D, Burrage K.

Conf Proc IEEE Eng Med Biol Soc. 2011;2011:704-7. doi: 10.1109/IEMBS.2011.6090159.

PMID:
22254407
37.

A multiscale investigation of repolarization variability and its role in cardiac arrhythmogenesis.

Pueyo E, Corrias A, Virág L, Jost N, Szél T, Varró A, Szentandrássy N, Nánási PP, Burrage K, Rodríguez B.

Biophys J. 2011 Dec 21;101(12):2892-902. doi: 10.1016/j.bpj.2011.09.060. Epub 2011 Dec 20.

38.

Fast parallel Markov clustering in bioinformatics using massively parallel computing on GPU with CUDA and ELLPACK-R sparse format.

Bustamam A, Burrage K, Hamilton NA.

IEEE/ACM Trans Comput Biol Bioinform. 2012 May-Jun;9(3):679-92. doi: 10.1109/TCBB.2011.68.

PMID:
21483031
39.

Look before you leap: a confidence-based method for selecting species criticality while avoiding negative populations in τ-leaping.

Yates CA, Burrage K.

J Chem Phys. 2011 Feb 28;134(8):084109. doi: 10.1063/1.3554385.

PMID:
21361529
40.

Design of novel CXCR4 antagonists that are potent inhibitors of T-tropic (X4) HIV-1 replication.

Skerlj R, Bridger G, McEachern E, Harwig C, Smith C, Kaller A, Veale D, Yee H, Skupinska K, Wauthy R, Wang L, Baird I, Zhu Y, Burrage K, Yang W, Sartori M, Huskens D, De Clercq E, Schols D.

Bioorg Med Chem Lett. 2011 Mar 1;21(5):1414-8. doi: 10.1016/j.bmcl.2011.01.021. Epub 2011 Jan 11.

PMID:
21295470
41.

Determination of somatic and cancer stem cell self-renewing symmetric division rate using sphere assays.

Deleyrolle LP, Ericksson G, Morrison BJ, Lopez JA, Burrage K, Burrage P, Vescovi A, Rietze RL, Reynolds BA.

PLoS One. 2011 Jan 5;6(1):e15844. doi: 10.1371/journal.pone.0015844.

42.

Survey of nasopharyngoscope decontamination methods in Canada.

Brake MK, Lee BS, Savoury L, Cavanagh JP, Burrage KJ, Smith TJ, Brown TF.

J Otolaryngol Head Neck Surg. 2010 Dec;39(6):714-22.

PMID:
21144369
43.

Bayes-optimal chemotaxis.

Mortimer D, Dayan P, Burrage K, Goodhill GJ.

Neural Comput. 2011 Feb;23(2):336-73. doi: 10.1162/NECO_a_00075. Epub 2010 Nov 24.

PMID:
21105826
44.

Phenomenological modeling of cell-to-cell and beat-to-beat variability in isolated Guinea Pig ventricular myocytes.

Walmsley J, Mirams G, Bahoshy M, Bollensdorff C, Rodriguez B, Burrage K.

Conf Proc IEEE Eng Med Biol Soc. 2010;2010:1457-60. doi: 10.1109/IEMBS.2010.5626858.

PMID:
21096356
45.

Exploring the parameter space of a rabbit ventricular action potential model to investigate the effect of variation on action potential and calcium transients.

Gemmell P, Burrage K, Rodriguez B, Quinn T.

Conf Proc IEEE Eng Med Biol Soc. 2010;2010:2662-5. doi: 10.1109/IEMBS.2010.5626617.

PMID:
21096193
46.

Simulation methods with extended stability for stiff biochemical Kinetics.

Rué P, Villà-Freixa J, Burrage K.

BMC Syst Biol. 2010 Aug 11;4:110. doi: 10.1186/1752-0509-4-110.

47.

High-throughput cardiac science on the Grid.

Abramson D, Bernabeu MO, Bethwaite B, Burrage K, Corrias A, Enticott C, Garic S, Gavaghan D, Peachey T, Pitt-Francis J, Pueyo E, Rodriguez B, Sher A, Tan J.

Philos Trans A Math Phys Eng Sci. 2010 Aug 28;368(1925):3907-23. doi: 10.1098/rsta.2010.0170.

48.

The systems biology approach to drug development: application to toxicity assessment of cardiac drugs.

Rodriguez B, Burrage K, Gavaghan D, Grau V, Kohl P, Noble D.

Clin Pharmacol Ther. 2010 Jul;88(1):130-4. doi: 10.1038/clpt.2010.95. Epub 2010 Jun 2. Review.

PMID:
20520607
49.

Fast stochastic simulation of biochemical reaction systems by alternative formulations of the chemical Langevin equation.

Mélykúti B, Burrage K, Zygalakis KC.

J Chem Phys. 2010 Apr 28;132(16):164109. doi: 10.1063/1.3380661.

PMID:
20441260
50.

A Bayesian network model of proteins' association with promyelocytic leukemia (PML) nuclear bodies.

Bodén M, Dellaire G, Burrage K, Bailey TL.

J Comput Biol. 2010 Apr;17(4):617-30. doi: 10.1089/cmb.2009.0140.

PMID:
20426694

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