Dr Mark Allenby

Senior Lecturer Biomedical Eng

School of Chemical Engineering
Faculty of Engineering, Architecture and Information Technology

Overview

Dr Mark C Allenby leads the BioMimetic Systems Engineering (BMSE) Lab. In the BMSE Lab, we combine Tissue Engineering, Biomedical Image Analysis, and Computational Biology to study and solve biological and medical problems using biomimetic systems. Initially, we focus on Blood Vessels and Vascularised Systems as these are the essential building blocks of mass transport in functional tissue. Our work aligns with chemical engineering fundamentals and clinical collaborators in vascular surgery, neurosurgery, and radiology. Our systems engineering approaches allow us to examine, model, engineer, optimise, control, scale, and automate dynamic systems of several entities such as multi-cellular tissues or cell-material and cell-fluid systems.

Mark is a Senior Lecturer in Biomedical Engineering and a future ARC DECRA Fellow (2022-2025) within UQ's School of Chemical Engineering. Mark is an Advance Queensland Fellow (2019-2022) and Adjunct Senior Lecturer at QUT. Mark has principally supervised 3 PhDs and 2 MPhil/RAs, co-supervised 7 PhDs, and has been awarded $1.7M of funding as chief investigator across 16 competitive funding rounds in 3 years. Mark received a PhD and MSc in chemical engineering from Imperial College London and has undergraduate degrees in mathematics and chemistry. Mark's background includes the engineering of dynamic stem cell bioreactors for tissue biomanufacturing, automated signal and image processing for tissue diagnostics, and model-based optimisation and control of 4D cell systems.

The BMSE Lab is hiring! We will be hiring one postdoctoral research associate and two PhD researchers to start January 2022. We will then be hiring additional PhDs researchers as part of Mark's ARC DECRA project April 2022. We are looking for candidates that have experience in engineered cell culture platforms and data science or computational modelling. The postdoc candidate must have published experience in engineered cell culture systems. Additional details and formal job advertisements are currently under the 'Avaliable Projects' tab, and interested candidates are encouraged to contact Mark now.

Research Interests

  • Tissue Engineering
    The field of tissue engineering aims to recreate tissue within the laboratory. We engineer synthetic platforms and culture cells to mimic or controllably grow complex and functional tissue at high density and scale. This artificial tissue may have future applications for therapeutics and grafts, testing and optimising interventions, and cellular agriculture. Topics: Biomaterial Fabrication, Bioreactor Engineering, Stem Cell & Tissue Culture.
  • Biomedical Image Analysis
    Imaging remains the gold standard technique to assess tissue quality and function. We capture microscopy and medical images and program algorithms and software to rapidly, automatically, and precisely diagnose our engineered tissue or patient tissue. This imaging data links our experiments to our computational models and to clinical data. Topics: Microscopy, MRI, CT, Segmentation, Statistical Shape Analyses, Co-Localisation, Motility & Fate Tracking
  • Computational Biology
    Predictive models of cell and tissue behaviour are necessary to optimise tissue manufacturing or guide clinical decision-making. Leveraging image analyses and culture experiments, we program multiscale mathematical or statistical models in single-cell, tissue-wide, or multi-tissue systems to link experiments to theory to practice. Topics: Cell Population Models (DE's), Single-Cell Models (Agent-Based), Tissue Biomechanics (FEA).

Qualifications

  • Doctor of Philosophy, The Imperial College of Science, Technology and Medicine

Publications

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Grants

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Supervision

  • Master Philosophy

  • Doctor Philosophy

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Available Projects

View all Available Projects

Publications

Book Chapter

  • Paxton, Naomi C., Wong, Cynthia S., Desselle, Mathilde R., Allenby, Mark C. and Woodruff, Maria A. (2020). Bone morphogenetic protein–assisted bone regeneration and applications in biofabrication. Biomaterials for Organ and Tissue Regeneration. (pp. 363-391) edited by Nihal Engin Vrana, Helena Knopf-Marques and Julien Barthes. Amsterdam, Netherlands: Elsevier. doi: 10.1016/b978-0-08-102906-0.00016-7

  • Allenby, Mark C., Dos Santos, Susana Brito, Panoskaltsis, Nicki and Mantalaris, Athanasios (2019). Differentiation of human pluripotent stem cells for red blood cell production. Bioreactors for stem cell expansion and differentiation. (pp. 47-62) edited by Joaquim M. S. Cabral and Cláudia Lobato da Silva. Boca Raton, FL, United States: CRC Press. doi: 10.1201/9780429453144-3

Journal Article

Conference Publication

Grants (Administered at UQ)

PhD and MPhil Supervision

Current Supervision

  • Master Philosophy — Principal Advisor

  • Doctor Philosophy — Principal Advisor

Possible Research Projects

Note for students: The possible research projects listed on this page may not be comprehensive or up to date. Always feel free to contact the staff for more information, and also with your own research ideas.

  • 2 year postdoc fellowship (Level A) starting January 2022. Seek Advertisement. Applications due Friday 27th August.

  • 3.5 year tuition + stipend starting Q2 2022 (April). Applications due 14th November.

  • 3.5 year tuition + stipend starting Q1 2022 (January). Applications due 27th September.

  • Advertisements TBA. Starting Q2 or Q3 2022.

    PhD scholarships related to a ARC DECRA grant aiming to organize and shape the formation of lab-grown tissue by 3D printing structures which control the behaviour of cells. This cell behaviour control will be accomplished through an interdisciplinary and multiscale pipeline of additive micromanufacturing, bioreactor engineering, cell culture, single-cell imaging, and computational modelling. In contrast with current empirical approaches, this quantitative and predictive understanding of how to control biological processes within 3D printed environments will design and engineer more robust, customisable, scalable, and economical cell culture platforms able to optimally manufacture bespoke and complex 3D tissues for future biomedical products. In collaboration with Prof Maria Woodruff (QUT).