Professor Bruce Gardiner
BSc(Hons), PhD

My research focuses on integrating the physical, chemical and biological processes defining biological systems. This is relevant to understanding diseases such as osteoarthritis, tendonopathy, colorectal cancer, and acute kidney injury. Primarily this integration is done through developing computational and mathematical models of these systems. However all projects involve close collaboration with experimental biologists and clinicians.

I have PhD projects at the interface between phyics, biology, medicine, engineering and mathematics. Please contact me if you are interested to find out more.

I am also co-organiser of the delightful seminar series From Snot to Tissue. Come along and find out what we do! All are welcome.
 

Interested in Physics? Here is the link to Murdoch’s Physics community.

2016
BRD209 Creativity and Innovation (Coordinate, Sem 1)
OBRD209 Creativity and Innovation (Coordinate, OUA2 and 3)
BIO378 Systems Biology (guest lecturer 1 week, Sem 2)

2015
PEN120 General Physics (4 weeks lectures, Sem 2)

Computational and mathematical modelling of physical and chemical processes in biological systems.

Current Projects

Computational systems biology: cell signal transduction pathways (e.g. Wnt/beta-catenin, IGF, IL-1, TNFa).

Musculoskeletal systems: Cartilage, tendon, bone

Epithelial Biology: cell dynamics and regulation in colonic crypts and colorectal cancer.

Renal oxygenation and Acute Kidney Injury (AKI)

 

Grants:

2017-2019	NHMRC 1122455 Towards prevention of acute kidney injury after cardiac surgery, R Evans, C May, J Smith, D Smith, A Thrift, B Gardiner, A Cochrane
2014-2016	ARC DP14010345 The comparative physiology of oxygen delivery to the kidney, D Smith, R Evans, B Gardiner, J Pearson, M Kett
2013-2015	NHMRC 1051538 Bridging the gap between cartilage biology and osteoarthritis risk prediction, B Gardiner, D Smith, D Lloyd, A Grodzinsky, L Zhang, T Besier
2013-2015	NHMRC 1051455 Glycomic control of cartilage extra cellular matrix turnover, D Smith, D Coombe, B Gardiner, A Grodzinsky
2012-2014	NHMRC 1029628 Investigating the roles of the wnt and notch signalling systems in colon, A Burgess, B Gardiner, D Smith
2011-2014	ARC LP110100581 Bioengineered bioscaffolds for Achilles tendinopathy treatment, DG Lloyd, DW Smith, J Xu, BS Gardiner, TB Kirk, J Rubenson, M Zheng
2010-2012	NH&MRC 606601 Hypoxia is the common pathway to renal failure, R Evans, J Bertram, M Schlaich, B Gardiner D Smith, J Phillips
2009	UWA Professor-at-large Scheme. Grant to have Professor Alan Grodzinsky (MIT) visit UWA twice during 2010-2011
2009-2011	ARC DP0988001 Engineering cartilage homeostasis in health and disease, DW Smith, BS Gardiner, AJ Grodzinsky
2009-2011	NH&MRC 542531 Stimulations of colon cancer, AW Burgess, DW Smith, BS Gardiner
2009-2011	NH&MRC 529918 Regulating fluid mechanics to improve the outcome of glaucoma surgery, JG Crowston, DW Smith, BS Gardiner, MA Coote
2009-2010	Prostate Cancer Foundation of Australia Concept grant CG10 Integrative systems modelling of prostate cancer bone metastases, DW Smith, BS Gardiner, P Pivonka, GR Mundy, NA Bhowmick.
2005	Australian Academy of Science Scientific visits to the United States, Canada and Mexico. Visit to Center for Biomedical Engineering, Massachusetts Institute of Technology, Boston USA.
2003	Melbourne Research Grant Scheme, A. Tordesillas, B. Gardiner
2002	ARC Australian Postdoctoral Fellowship (APD) DP0211085 Behaviour of particles in flotation froths, G Jameson, AV Nguyen, JS Van Deventer, BS Gardiner
1995	University of Newcastle Postgraduate Research Scholarship

WA Australian Institute of Physics, Guest Speaker, 25th November 2015. Morpheus: “The Matrix is a system, Neo.”

Find me on Google Scholar

Book Chapters:

Evans, R.G., J.A. Smith, B.S. Gardiner, D.W. Smith, A.G. Thrift, Y.R. Lankadeeva, C.N. May, A.D. Cochrane, Hypoxia as a biomarker of kidney disease. Diseases of the Kidney, Eds Preedy V.R. & Patel V.B, Series: Biomarkers of Disease: Methods, Discoveries and Applications (series editor V.R. Preedy), Springer, Netherlands, pp 1-23, 2016.

Zhang, L., B.S. Gardiner, D.W. Smith, P. Pivonka, A.J. Grodzinsky, The Transport of Insulin-like Growth Factor through Cartilage, in Porous Media Applications in Biological Systems and Biotechnology, Editor K. Vafai, CRC, 1^st Edition, pp 399-453, Dec 2010.

Journal Publications:

2017
Lee, C.J., J.P. Ngo, S. Kar, B.S. Gardiner, R.G. Evans, D.W. Smith, A pseudo-three-dimensional model for quantification of oxygen diffusion from pre-glomerular arteries to renal tissue and renal venous blood, American Journal of Physiology-Renal Physiology, in press, 2017.

Lee, C.J., B.S. Gardiner, J.P. Ngo, S. Kar, R.G. Evans, D.W. Smith, Accounting for oxygen in the renal cortex: A computational study of factors that predispose the cortex to hypoxia, American Journal of Physiology-Renal Physiology, in press, 2017.

Mehdizadeh, A., B.S. Gardiner, M. Lavagnino, D.W. Smith, Predicting tenocyte expression profiles and average molecular concentrations in Achilles tendon ECM from tissue strain and fiber damage, Biomechanics and Modeling in Mechanobiology, 1-20, 2017. Link.

2016
Kar, S., D.W. Smith, B.S. Gardiner, A.J. Grodzinsky, Systems based study of the therapeutic potential of small charged molecules for the inhibition of IL-1 mediated cartilage degradation, PLoS One 11(12): e0168047, 2016. Link.

Young, S.R., B. Gardiner, A. Mehdizadeh, J. Rubenson, B. Umberger, D.W. Smith, Adaptive remodeling of Achilles tendon: A multi-scale computational model, PLoS Computational Biology, 12(9): e1005106, 2016 Link.

Ngo, NP, C.P.C. Ow, B.S. Gardiner, S. Kar, J.T. Pearson, D.W. Smith, R.G. Evans, Diffusive shunting of gases and other molecules in the renal vasculature: Physiological and evolutionary significance, American Journal of Physiology-Regulatory, Integrative and Comparative Physiology, 311(5): R797-R810, 2016. Link

Sgouralis, I., M.M. Kett, C.P.C. Ow, A. Abdelkader, A.T. Layton, B.S. Gardiner, D.W. Smith, Y.R. Lankadeva, R.G. Evans, Bladder urine oxygen tension for assessing renal medullary oxygenation in rabbits: Experimental and modelling studies, American Journal of Physiology-Regulatory, Integrative and Comparative Physiology, 311(3), R532-R544, 2016 Link.

Pang, X., J.P. Wu, G.T. Allison, J. Xu, J. Rubenson, M.-H. Zheng, D.G. Lloyd, B. Gardiner, A. Wang, T.B. Kirk, The three dimensional microstructural network of elastin, collagen and cells in achilles tendons, Journal of Orthopaedic Research, in press (accepted 18/3/2016).

Kar, S., D.W. Smith, B.S. Gardiner, Y. Li, Y. Wang, A.J. Grodzinsky, Modeling IL-1 induced degradation of articular cartilage, Archives of Biochemistry and Biophysics, 594: 37–53, 2016. Link

Gardiner, B.S., F.G. Woodhouse, T.F. Besier, A.J. Grodzinsky, D.G. Lloyd, L. Zhang, D.W. Smith, Predicting knee osteoarthritis, Annals of Biomedical Engineering, 44 (1): 222-233, 2016. Link

Gardiner, B.S., G.R. Joldes, K.K.L. Wong, C.W. Tan, D.W. Smith, Controlling seepage in discrete particle simulations of biological systems, Computer Methods in Biomechanics and Biomedical Engineering, 19(10), 1160–1170, 2016. Link

Smith, D.W., B.S. Gardiner, J. Davidson, A.J. Grodzinsky, Computational model for the analysis of cartilage and cartilage tissue constructs, Journal of Tissue Engineering and Regenerative Medicine, 10: 334–347, 2016. link

2015

Gardiner, B.S., K.L. Wong, G.R. Joldes, A.J. Rich, C.W. Tan, A.W. Burgess, D.W. Smith, Discrete element framework for modelling extracellular matrix, deformable cells and subcellular components, PLoS Computational Biology, 11(10): e1004544.
doi:10.1371/journal.pcbi.1004544, 2015. Link

Wang, T., Z. Lin, M. Ni, C. Thien, R.E. Day, B.S. Gardiner, J. Rubenson, T.B. Kirk, D.W. Smith, A. Wang, D.G. Lloyd, Y. Wang, Q. Zheng, M.H. Zheng, Cyclic mechanical stimulation rescues rabbit Achilles tendon from degeneration in a bioreactor system, Journal of Orthopaedic Research, 33(12):1888-1896, 2015. Link

Evans, R.G., D.W. Smith, Z. Khan, J.P. Ngo, B.S. Gardiner, The plausibility of arterial-to-venous oxygen shunting in the kidney: It all depends on radial geometry, Letter to Editor, American Journal of Physiology: Renal Physiology, 309: F179–F180, 2015.

Woodhouse, F.G., B.S. Gardiner, D.W. Smith, Short-term consolidation of articular cartilage in the long-term context of osteoarthritis, Journal of Theoretical Biology, 368: 102-112, 2015. Link

Sgouralis, I., R.G. Evans, B.S. Gardiner, B. Fry, A.T. Layton, Renal hemodynamics, function and oxygenation during cardiac surgery performed on cardiopulmonary bypass: A modeling study, Physiological Reports, 3(1): e12260, 2015. Link

Zhang, L., S. Miramini, D.W. Smith, B.S. Gardiner, A.J. Grodzinsky, Time evolution of deformation in a human cartilage under cyclic loading, Annals of Biomedical Engineering, 43(5): 1166–1177, 2015. Link

2014

Shim,V.B., J.W. Fernandez, P.B. Gamage, C. Regnery, D.W. Smith, B.S. Gardiner, D.G. Lloyd, T.F. Besier, Subject-specific finite element analysis to characterize the influence of geometry and material properties in Achilles tendon Rupture, Journal of Biomechanics, 47(15): 3598-3604, 2014. Link

J.P. Ngo, S. Kar, M.M. Kett, B.S. Gardiner, J.T. Pearson, D.W. Smith, J. Ludbrook, J.F. Bertram, R.G. Evans, Vascular geometry and oxygen diffusion in the vicinity of artery-vein pairs in the kidney, American Journal of Physiology-Renal Physiology, 307(10): F1111-F1122, 2014. pdf

C.W. Tan, B.S. Gardiner, Y. Hirokawa, D.W. Smith, A.W. Burgess, Analysis of Wnt signaling beta-catenin spatial dynamics in HEK293T cells, BMC Systems Biology 8(1): 44, 2014. pdf

Evans, R.G., J. Smith, C. Wright, B.S. Gardiner, D.W. Smith, A. Cochrane, Urinary oxygen tension: a clinical window on the health of the renal medulla?, American Journal of Physiology – Regulatory, Integrative and Comparative Physiology, 306(1): R45-R50, 2014. pdf

2013

Tan, C.W., Y. Hirokawa, B.S. Gardiner, D.W. Smith, A.W. Burgess, Colon cryptogenesis: Asymmetric budding, PLoS ONE 8(10): e78519. doi:10.1371/journal.pone.0078519, 2013. pdf

van der Wath, R.C., B.S. Gardiner, A.W. Burgess, D.W. Smith, Cell organisation in the colonic crypt: A theoretical comparison of the pedigree and niche concepts, PLoS ONE 8(9): e73204. doi:10.1371/journal.pone.0073204e66870, 2013. pdf

Zhang, L., D.S. Smith, B.S. Gardiner, A.J. Grodzinsky, Modeling the Insulin-like Growth Factor system in articular cartilage, PLoS ONE 8(6): e66870, 2013. pdf

Smith, D.W., J. Rubenson, D. Lloyd, M.H. Zheng, J. Fernandez, T. Besier, J. Xu, B.S. Gardiner, A conceptual framework for computational models of Achilles tendon homeostasis, WIREs Systems Biology and Medicine, 5(5): 523-38, 2013. doi: 10.1002/wsbm.1229. pdf

Evans, R.G., C. Ince, J.A. Joles, D.W. Smith, C.N. May, P.M. O’Connor, B.S. Gardiner, Haemodynamic influences on kidney oxygenation: The clinical implications of integrative physiology, Clinical and Experimental Pharmacology and Physiology, 40(2): 106-122, 2013. pdf

Wang, T., Z. Lin, R.E. Day, B.S. Gardiner, E. Landao-Bassonga, J. Rubenson, T.B. Kirk, D.W. Smith, D.G. Lloyd, G. Hardisty, A. Wang, M.H. Zheng, Programmable mechanical stimulation on tendon homeostasis in a bioreactor system, Biotechnology and Bioengineering, 110(5): 1495-1507, 2013. pdf

2012

Wang, T., Gardiner, B.S., Lin, Z., Rubenson, J., Kirk, T.B., Wang, A., Xu, J., Smith, D.W., Lloyd, D.G., Zheng, M.H., Bioreactor design for tendon/ligament engineering, Tissue Engineering 19(2): 1-14, 2012 pdf

Nguyen, D.Q., Ross, C.M., Li, Y.Q., Lo, I., Pandav, S., Gardiner, B., Smith, D., How, A.C., Crowston, J.G., Coote, M.A., A model to measure fluid outflow in rabbit capsules post glaucoma implant surgery, IOVS- Investigative Ophthalmology & Visual Science 53: 6914-6919, 2012.  pdf

Gardiner, B.S., Thompson, S.L., Ngo, J.P., Smith, D.W., Abdelkader, A., Broughton, B.R.S., Bertram, J.F., Evans, R.G., Diffusive oxygen shunting between vessels in the pre-glomerular renal vasculature: anatomical observations and computational modeling, American Journal of Physiology – Renal Physiology 303: F605-F618, 2012, doi:10.1152/ajprenal.00186.2012  pdf

Smith, D.W., Gardiner, B.S., Dunstan, C., Bone balance within a cortical BMU: local controls of bone resorption and formation, PLoS ONE 7(7): e40268, 2012. doi:10.1371/journal.pone.0040268.  pdf

Buenzli, P.R., Pivonka, P., Gardiner, B.S., Smith, D.W., Modelling the anabolic response of bone using a cell population model, Journal of Theoretical Biology 307: 42-52, 2012  pdf

Tan, C.W., Gardiner, B.S., Hirokawa, Y., Layton, M.J., Smith, D.W., Burgess, A.W., Wnt signalling pathway parameters for mammalian cells, PLoS ONE 7(2): e31882, 2012. doi:10.1371/journal.pone.0031882.  pdf

2011

Gardiner, B.S., L. Zhang, D.W. Smith, P. Pivonka, A.J. Grodzinsky, A mathematical model for targeting chemicals to tissues by exploiting complex degradation, Biology Direct 6:46, 1-16, 2011.

Gardiner, B.S., D.W. Smith, P.M. O’Connor, R.G. Evans, A mathematical model of diffusional shunting of oxygen from arteries to veins in the kidney, American Journal of Physiology – Renal Physiology 300: F1339-F1352, 2011.  pdf

2010

Gardiner, B.S.,  D.W. Smith, M. Coote, J.G. Crowston, Computational modeling of fluid flow and intra-ocular pressure following glaucoma surgery, PLoS ONE 5(10): e13178, 2010. doi:10.1371/journal.pone.0013178   pdf

Zhang, L., Gardiner, B.S., Smith, D.W., Pivonka, P., Grodzinsky, A.J., On the role of diffusible binding partners in modulating the transport and concentration of proteins in tissues, Journal of Theoretical Biology 263: 20-29, 2010.  pdf

Pivonka, P., J. Zimak, D.W. Smith, B.S. Gardiner, C.R. Dunstan, N.A. Sims, T.J. Martin, G.R. Mundy, Theoretical investigation of the role of the  RANK-RANKL-OPG system in bone remodeling, Journal of Theoretical Biology 262: 306:316, 2010. pdf

2009

Zhang, L.,  B.S. Gardiner, D.W. Smith, P. Pivonka, A.J. Grodzinsky, Integrated model of IGF-I mediated biosynthesis in deformed articular cartilage, Appeared in a topically issue on Micro and Nanomechanics of Biological and Bio-inspired Materials, Journal of Engineering Mechanics 135(5): 439-449, 2009.

Pivonka, P., G.A. Narsilio, R.N. Li, D.W. Smith, B. Gardiner, Electrodiffusive Transport in Charged Porous Media: From the Particle-Level Scale to the Macroscopic Scale Using Volume Averaging, Journal of Porous Media 12(2):101-118, 2009.

2008

Zhang, L., B.S. Gardiner, D.W. Smith, P. Pivonka, A.J. Grodzinsky, IGF Uptake with Competitive Binding in articular cartilage, Journal of Biological Systems 6(2):175-195, 2008. link

Pivonka, P., J. Zimak, D.W. Smith, B. Gardiner, C.B. Dunstan, N.A. Sims, T.J. Martin, G. Mundy. Model structure and control of bone remodeling: A theoretical study, Bone 43: 249-263, 2008. link

Zhang, L., B. Gardiner, D.W. Smith, P. Pivonka, A. Grodzinsky, A fully coupled poroelastic reactive-transport model of cartilage, Molecular & Cellular Biomechanics 5(2): 133-153, 2008. link

Evans, R.G., B.S Gardiner, D.W. Smith, P.M. O’Connor, Intrarenal oxygenation: unique challenges and the biophysical basis of homeostasis, American Journal of Physiology – Renal Physiology 295: F1259-F1270, 2008. pdf

Evans, R.G., B.S Gardiner, D.W. Smith, P.M. O’Connor, Methods for studying the physiology of kidney oxygenation, Clinical and Experimental Pharmacology and Physiology 35: 1405-1412, 2008. pdf

<2007

Zhang, L., B.S. Gardiner, D.W. Smith, P. Pivonka, A.J. Grodzinsky, The effect of cyclic deformation and solute binding on solute transport in cartilage, Archives of Biochemistry and Biophysics 457 : 47-56, 2007. pdf

Gardiner, B.S., D.W. Smith, P. Pivonka, A.J. Grodzinsky, E.H. Frank and L. Zhang, Solute transport in cartilage undergoing cyclic deformation, Computer Methods in Biomechanics and Biomedical Engineering 10: 265-278, 2007. link

Pivonka, P., Smith, D.W., B. Gardiner, Investigation of Donnan equilibrium in charged porous materials . a scale transition analysis, Transport in Porous Media 69 : 215-237, 2007.   pdf

Gardiner B.S., A. Tordesillas. Effects of particle size distribution in a three-dimensional micropolar continuum model of granular media, Powder Technology 161: 110-121, 2006. pdf

Gardiner, B.S., D.W. Smith, P. Pivonka. A two-dimensional mathematical model for dorsal appendage cell patterning in Drosophila. Developmental Biology 283: 688, 553, 2005.

Boudreau, B.P., C. Algar, B.D. Johnson, I. Croudace, A. Reed, Y. Furukawa, K.M. Dorgan, P.A. Jumars, A.S. Grader, B.S. Gardiner. Bubble growth and rise in soft sediments, Geology 33(6): 517-520, 2005.

Gardiner B.S., A. Tordesillas, The link between discrete and continuous modeling of liquid foam at the level of a single bubble. Journal of Rheology 49(4): 819-838, 2005.

Gardiner B.S., A. Tordesillas, Micromechanical constitutive modelling of granular media: evolution and loss of contact in particle clusters, Journal of Engineering Mathematics 52 (1-3): 93-106, 2005.

Tordesillas, A., S. D. C. Walsh, B.S. Gardiner, Bridging the length scales: micromechanics of granular media. BIT Numerical Mathematics 44: 539-556, 2004.

Gardiner, B.S., A. Tordesillas, Micromechanics of shear bands. International Journal of Solids and Structures 41, pp. 5885-5901, 2004.

Tordesillas, A., J.F. Peters, B.S. Gardiner, Shear band evolution and accumulated microstructural development in Cosserat media. International Journal of Numerical and Analytical Methods in Geomechanics. 28: pp. 981-1010, 2004.

Tordesillas, A., J. F. Peters, B.S. Gardiner, Insights into 1D localisation theory and micromechanical constitutive laws. Geotechnique. 54: 327-330, 2004.

Gardiner, B.S., B. P. Boudreau, B. D. Johnson, Slow growth of an isolated disk-shaped bubble of constant eccentricity in the presence of a distributed gas source. Applied Mathematical Modelling 27: 817-829, 2003.

Gardiner, B.S., B. P. Boudreau B. D. Johnson, Growth of disk-shaped bubbles in sediments. Geochimica et Cosmochimica Acta 67: 1485-1494, 2003.

Johnson, B.D., B. P. Boudreau, B.S. Gardiner, R. Maas, Mechanical response of sediments to bubble growth. Marine Geology 187: 347-363, 2002.

Boudreau, B.P., B.S. Gardiner, B. D. Johnson, Rate of growth of isolated bubbles in sediments with a diagenetic source of methane (vol 46, pg 616, 2001). Limnology and Oceanography. 46: 1578-1578, 2001.

Boudreau, B.P., B.S. Gardiner, B. D. Johnson, Rate of growth of isolated bubbles in sediments with a diagenetic source of methane, Limnology and Oceanography 46: 616-622, 2001.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson. Coarsening of two- and three-dimensional wet polydisperse foams. Philosophical Magazine A-Physics of Condensed Matter Struct. Defects Mech. Prop. 80: 981-1000, 2000.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson, The steady shear of three-dimensional wet polydisperse foams. Journal of Non-Newtonian Fluid Mechanics 92: 151-166, 2000.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson, The evolution of defects in a two-dimensional wet foam. Journal of Physics-Condensed Matter 11: 5437-5453, 1999.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson, Prediction of pressure losses in pipe flow of aqueous foam. Industrial and Engineering Chemistry Research 38: 1099-1106, 1999.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson, Rheology of fire-fighting foams. Fire Safety Journal 31: 61-75, 1998.

Gardiner, B.S., B.Z. Dlugogorski, G.J. Jameson, R. P. Chhabra. Yield stress measurements of aqueous foams in the dry limit. Journal of Rheology 42: 1437-1450, 1998