Dr Soroush Safaei

BE Sharif, PhD

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Research Fellow


Soroush Safaei is a post-doctoral research fellow in Auckland Bioengineering Institute at University of Auckland and has been a member of Physiome project group since 2010. He completed his PhD at University of Auckland and his undergraduate studies in Mechanical Engineering at Sharif University of Technology in Iran. His research interests in bioengineering lie in the areas of computational modelling, cardiovascular system, systems biology, dementia, diabetes, and bond graphs. He has collaborated actively with researchers in several other disciplines of physiology, neuroscience and pharmacology for understanding human physiology, from proteins and cells to tissues and organs, with multi-scale models that use computational techniques derived from engineering and software approaches from computer science.

Research | Current

Computational physiology often relies on multi-scale models of coupled physical processes that can both accurately represent anatomical organ/tissue structure and link to molecular mechanisms. Soroush is developing a mathematical framework based on the transfer, storage and dissipation of energy that addresses these molecule-to-organ scales. The organ level models are typically based on finite element descriptions of organ anatomy upon which biophysical field equations can be solved, using material constitutive laws that are described in relation to underlying tissue structure. These models then invoke cellular mechanisms that are described by a bond graph framework to ensure both conservation of mass or charge and conservation of energy.


Research group

Virtual Brain Project
Physiome Project

Teaching | Current

Doctoral Training Program (DTP) - Computational Physiology

Postgraduate supervision

  • Jiantao Shen (PhD)
  • Elias Ghadam Soltani (PhD)
  • Nima Afshar Ghotli (PhD)
  • Finbar Argus (PhD)
  • Renfei Ma (PhD)
  • Zohreh Ekhlasi (ME)
  • Cameron Apeldoorn (ME)

Areas of expertise

  • Cardiovascular System
  • Computational Physiology
  • Bond Graph Method
  • Neurovascular Coupling
  • Diabetes

Committees/Professional groups/Services

ABI Early Career Researchers (ECR) Group Representative

Selected publications and creative works (Research Outputs)

  • Ma, R., Hunter, P., Cousins, W., Ho, H., Bartlett, A., & Safaei, S. (2019). Modeling the hepatic arterial flow in living liver donor after left hepatectomy and postoperative boundary condition exploration. International journal for numerical methods in biomedical engineering10.1002/cnm.3268
    Other University of Auckland co-authors: Harvey Ho, Peter Hunter
  • Brown, P., Tan, A.-C., El-Esawi, M. A., Liehr, T., Blanck, O., Gladue, D. P., ... Yeung, A. W. K. (2019). Large expert-curated database for benchmarking document similarity detection in biomedical literature search. DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION10.1093/database/baz085
    Other University of Auckland co-authors: Andrew Chen
  • Ma, R., Hunter, P., Cousins, W., Ho, H., Bartlett, A., & Safaei, S. (2019). Anatomically based simulation of hepatic perfusion in the human liver. International journal for numerical methods in biomedical engineering, 35 (9)10.1002/cnm.3229
    Other University of Auckland co-authors: Harvey Ho, Peter Hunter, Adam Bartlett
  • Afshar, N., Safaei, S., Nickerson, D. P., Hunter, P. J., & Suresh, V. (2019). Computational Modeling of Glucose Uptake in the Enterocyte. FRONTIERS IN PHYSIOLOGY, 1010.3389/fphys.2019.00380
    URL: http://hdl.handle.net/2292/46930
    Other University of Auckland co-authors: David Nickerson, Peter Hunter, Vinod Suresh
  • Afshar, N., Safaei, S., Nickerson, D., Hunter, P., & Suresh, V. (2018). Computational Modelling of the Role of GLUT2 in Glucose Uptake by Intestinal Epithelial Cells. Paper presented at 2018 Virtual Physiological Human Conference, Zaragoza, Spain. 5 September - 7 September 2018. Related URL.
    URL: http://hdl.handle.net/2292/46716
    Other University of Auckland co-authors: Vinod Suresh, David Nickerson, Peter Hunter
  • Safaei, S., Blanco, P. J., Muller, L. O., Hellevik, L. R., & Hunter, P. J. (2018). Bond Graph Model of Cerebral Circulation: Toward Clinically Feasible Systemic Blood Flow Simulations. FRONTIERS IN PHYSIOLOGY, 910.3389/fphys.2018.00148
    URL: http://hdl.handle.net/2292/40393
    Other University of Auckland co-authors: Peter Hunter
  • Chase, J. G., Preiser, J.-C., Dickson, J. L., Pironet, A., Chiew, Y. S., Pretty, C. G., ... Safaei, S. (2018). Next-generation, personalised, model-based critical care medicine: a state-of-the art review of in silico virtual patient models, methods, and cohorts, and how to validation them. Biomedical engineering online, 17 (1)10.1186/s12938-018-0455-y
    URL: http://hdl.handle.net/2292/44686
    Other University of Auckland co-authors: Peter Hunter, Merryn Tawhai
  • de Bono, B., Safaei, S., Grenon, P., & Hunter, P. (2018). Meeting the multiscale challenge: Representing physiology processes over ApiNATOMY circuits using bond graphs. Interface Focus, 8 (1)10.1098/rsfs.2017.0026
    URL: http://hdl.handle.net/2292/39310
    Other University of Auckland co-authors: Bernard de Bono, Peter Hunter


Contact details

Primary office location

Level 6, Room 601
New Zealand

Web links