Publications

Articles

Search Title, Authors, Abstract, Year

2016

Heterogeneous mechanics of the mouse pulmonary arterial network
Lee P, Carlson BE, Chesler N, Olufsen MS, Qureshi MU, Smith NP, Sochi T, Beard DA
Biomech Model Mechanobiol. 2016. PMID: 26792789
Mathematical modeling in Neuroscience: Neuronal activity and its modulation by astrocytes
Tewari SG, Gottipati MK, Parpura V
Front. Integr. Neurosci. 10:3, 2016.
An immersed boundary method for two-phase fluids and gels and the swimming of Caenorhabditis elegans through viscoelastic fluids
Lee P, Wolgemuth CW
Phys. Fluids 28, 011901, 2016

2015

Big Data Analytics in Healthcare
Belle A, Thiagarajan R, Soroushmehr SM, Navidi F, Beard DA, Najarian K
Biomed Res Int. 2015:370194, 2015. PMID: 26229957 PMCID: PMC4503556 
Bridging scales through multiscale modeling: A case study on Protein Kinase A
Boras BW, Hirakis SP, Votapka LW, Malmstrom RD, Amaro RE, McCulloch AD
Front. Physiol. 6:250, 2015. PMCID: PMC4563169. 
Simple accurate mathematical models of blood HbO2 and HbCO2 dissociation curves at varied physiological conditions: evaluation and comparison with other models
Dash RK, Korman B, Bassingthwaighte J
Eur J Appl Physiol. 115(8), 2015. PMID: 26298270 PMCID: PMC4699875
Computational analysis of the regulation of Ca(2+) dynamics in rat ventricular myocytes
Bugenhagen SM, Beard DA
Phys Biol. 12(5), 2015.
Fluorescence dilution technique for measurement of albumin reflection coefficient in isolated glomeruli.
Fan F, Chen CC, Zhang J, Schreck CM, Roman EA, Williams JM, Hirata T, Sharma M, Beard DA, Savin VJ, Roman RJ
Am J Physiol Renal Physiol. 309(12):F1049-59, 2015
Semantics-based composition of integrated cardiomyocyte models motivated by real-world use cases
Neal ML, Carlson BE, Thompson CT, James RC, Kim KG, Tran K, Crampin EJ, Cook DL, Gennari JH
PLoS One. 10(12): e0145621
Astrocytic Modulation of Local Field Potential Rhythm
Tewari S, Parpura V
Frontiers in Integrative Neuroscience (accepted)
OpenCOR: a modular and interoperable approach to computational biology
Garny A, Hunter PJ
Front. Physiol. 6:26, 2015.
Wave propagation in a 1D fluid dynamics model validated using pressure-area measurements from ovine arteries
Battista C, Bia D, Zocalo Y, Armentano RL, Haider MA, Olufsen MS
J Mech Med Biol, 15(5):1650007, 2015.
Regulation of cardiac cellular bioenergetics: mechanisms and consequences
Tran K, Loiselle DS, Crampin EJ
Physiol Rep. 3(7), e12464 2015. PMCID: PMC4552539
Mathematical model of the interaction between baroreflex and cerebral autoregulation. Submitted, Proc 4th Int conf on Comp Math Biomed Eng
Mahdi A, Olufsen MS, Payne SJ
CMBE2015 (2015), 721-724.
Using Kalman filtering to predict time-varying parameters in a model predicting baroreflex regulation during head-up tilt
Matzuka B, Mehlsen J, Tran HT, Olufsen MS
IEEE Trans Biomed Eng. 2015
Diverse data sets can yield reliable information through mechanistic modeling: salicylic acid clearance
Raymond GM, Bassingthwaighte JB
Brit J Pharmacol Res. 7:6 457-473, 2015.
Mechanotransduction in cardiac hypertrophy and failure
Lyon RC, Zanella F, Omens JH, Sheikh F
Circ Res. 116(8): 1462-76, 2015. PMCID: PMC4394185
Hypokalaemia induces Ca(2+) overload and Ca(2+) waves in ventricular myocytes by reducing Na(+),K(+)-ATPase α2 activity
Aronsen JM, Skogestad J, Lewalle A, Louch WE, Hougen K, Stokke MK, Swift F, Niederer S, Smith NP, Sejersted OM, Sjaastad I
J Physiol. 593(6): 1509-21, 2015. PMCID: PMC 4376427
Towards causally cohesive genotype-phenotype modelling for characterization of the soft-tissue mechanics of the heart in normal and pathological geometries
Nordbø Ø, Gjuvsland AB, Nermoen A, Land S, Niederer S, Lamata P, Lee J, Smith NP, Omholt SW, Vik JO
J R Soc Interface. 12(106), 2015. PMCID: PMC4424664
Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative.
Hucka M, Nickerson DP, Bader GD, Bergmann FT, Cooper J, Demir E, Garny A, Golebiewski M, Myers CJ, Schreiber F, Waltemath D, Le Novère N
Front Bioeng Biotechnol. 3:19 2015, PMCID: PMC4338824
OpenCOR: a modular and interoperable approach to computational biology
Alan Garny, Peter J. Hunter
Front Physiol. 6: 26. PMCID: PMC4319394
Determination of the catalytic mechanism for mitochondrial malate dehydrogenase
Dasika SK, Vinnakota KC, Beard DA
Biophys J. 2015 Dec; 108(2): 408-19. PMCID: PMC4302198.
Characterization of the kinetics of cardiac cytosolic malate dehydrogenase and comparative analysis of cytosolic and mitochondrial isoforms
Dasika SK, Vinnakota KC, Beard DA
Biophys J. 2015 Jan; 108(2): 420-30. PMCID: PMC4302200.
Markov chain Monte Carlo based analysis of post-translationally modified VDAC gating kinetics
Tewari SG, Zhou Y, Otto BJ, Dash RK, Kwok WM, Beard DA
Frontiers in Physiology 2015 Jan 13;5:513. doi: 10.3389/fphys.2014.00513. eCollection 2014.PMCID: PMC4292549
Dynamics of cross-bridge cycling, ATP hydrolysis, force generation, and deformation in cardiac muscle.
Tewari SG, Bugenhagen SM, Palmer BM, Beard DA
J Molecular and Cellular Cardiology 96:11-25, 2015.

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