Publications

Overview

All VPR publications can be found below ordered by year of publication. You may sort by type of publication, keywords, associated research project or search by abstract, title or author.

Category
Search Title, Authors, Abstract, Year

2012

Increase of sodium delivery stimulates the mitochondrial respiratory chain H2O2 production in rat renal medullary thick ascending limb
Ohsaki Y, O’Connor P, Mori T, Ryan RP, Dickinson BC, Chang CJ, Lu Y, Ito S, Cowley AW Jr
Am J Physiol Renal Physiol. 302:F95-F102. 2012 PMCID: PMC3251339
Compartmental modeling in the analysis of biological systems
Bassingthwaighte JB, Butterworth E, Jardine B, Raymond G
Computational Toxicology: Volume 1 929: 391-438, edited by Brad Reisfeld and Arthur N Mayeno. Methods in Molecular Biology, 2012.
Global sensitivity and identifiably analysis applied to a model predicting baroreflex regulation during head-up tilt
Olsen CH, Mehlsen J, Ottesen JT, Tran HT, Olufsen MS
Proc The 1st international workshop on innovative simulation for healthcare, I-WISH. W. Backfrieder, A. Bruzzone, F. Longo, V. Novak, J. Rosen (eds), Rende (CS), Italy, 81-6, 2012.
Comparison of the Gibbs and Suga Formulations of Cardiac Energetics: the Demise of “Isoefficiency”
Han JC, Taberner AJ, Tran K, Goo S, Nickerson DP, Nash MP, Nielsen PMF, Crampin EJ, Loiselle DS.
Journal of Applied Physiology 996–1003, 2012. PMID: 22879535. PMCID: PMC3487497
One-dimensional modeling of blood flow in viscoelastic arteries
Olufsen MS, Haider MA, Battista C, Steele BN
Proc ECOMAS, Vienna, Austria.
Relating Components of Pressure-Volume Area in Suga’s Formulation of Cardiac Energetics to Components of the Stress-Time Integral
Han JC,, Taberner AJ, Tran K, Nickerson DP, Nash MP, Nielsen PMF, Crampin EJ, Loiselle DS
Journal of Applied Physiology 988–95, 2012. PMID: 22837173, PMCID: PMC3487493
Simulation of rarefaction: impact on blood pressure in the systemic and pulmonary large and small arteries.
Olufsen MS, Hill NA, Vaughan GA, Sainsbury C, Johnson M
J Fluid Mech. 705: 280-305, 2012. PMID: 22962497 PMCID: PMC3433075
Modeling to link regional myocardial work, metabolism, and blood flows
Bassingthwaighte JB, Beard DA, Carlson BE, RK Dash, KC Vinnakota
Ann Biomed Eng. 40(11): 2379-98. PMCID: PMC3471663
Physiologically based pharmacokinetic tissue compartment model selection in drug development and risk assessment
Thompson MD, Beard DA
J Pharm Sci. 1: 424-35, 2012. PMCID: PMC3314064
Mechanisms of pressure-diuresis and pressure-natriuresis in Dahl salt-resistant and Dahl salt-sensitive rats
Beard, DA, Mescam M
BMC Physiol.  12: 6. PMCID: PMC3536597
Use of partition coefficients in flow-limited physiologically based pharmacokinetic modeling
Thompson MD, Beard DA
J Pharmacokinet Pharmacodyn. 39(4): 313-27, 2012. PMCID: PMC3400708
Multiscale modeling and data integration in the Virtual Physiological Rat Project
Beard DA, Neal ML, Tabesh-Saleki N, Thompson CT, Bassingthwaighte JB, Shimoyama M, Carlson BE
Ann Biomed Eng. 40(11): 2365-78, 2012. PMID: 22805979 PMCID: PMC3463790
Parameters in dynamic models of complex traits are containers of missing heritability
Wang Y, Gjuvsland A, Vik JP, Smith NP, Hunter PJ, Omholt SW
PLoS Computational Biology 8(4): e1002459, 2012. PMCID: PMC3320574
Specification, construction, and exact reduction of state transition system models of biochemical processes
Bugenhagen SM, Beard DA
J Chem Phys. 137(15): 154108, 2012.  PMCID: PMC3487925
Myocardial twitch duration and the dependence of oxygen consumption on pressure-volume area: Experiments and modelling.
Han JC, Tran K, Taberner AJ, Nickerson DP, Kirton RS, Nielsen PMF, Ward ML, Nash MP, Crampin EJ, Loiselle DS
Journal of Physiology. 590(18): 4401-22, 2012. PMCID: PMC3477760
Patient specific parameter estimation and heart rate regulation
Olufsen MS, Ottesen JT
J Math Biol. 23:1350078, 2012.
Biosimulation: Simulation of Living Systems
Beard DA
Biosimulation: Simulation of Living Systems. Cambridge University Press; 1 edition. 2012

2011

Development of appropriate equations for physiologically based pharmacokinetic modeling of permeability-limited and flow-limited transport
Thompson MD, Beard DA
J Pharmacokinet Pharmacodyn. 38(4): 405-21, 2011. PMID: 21584718, PMCID: PMC3193163
Characterization of Mg2+ inhibition of mitochondrial Ca2+ uptake by a mechanistic model of mitochondrial Ca2+ uniporter
Pradhan RK, Qi F, Beard DA, Dash RK
Biophys J. 101(9): 2071-81, 2011. PMID: 22067144, PMCID: PMC3207172
Comparison of models and acquisition techniques for estimation of myocardial blood flow from CT.
Alessio AM, Branch KR, Caldwell JH, Bassingthwaighte JB
Proc SPIE 7965: 11.1-11.6, 2011.
A parallel algorithm for reverse engineering of biological networks
Bazil JN, Qi F, Beard DA
Integr Biol. 3: 1215-23, 2011. PMCID: PMC3424073

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