Dr Dawn Walker
School of Computer Science
Senior Lecturer
Director of Recruitment and Marketing
Member of the Complex Systems Modelling research group
d.c.walker@sheffield.ac.uk
+44 114 222 1914
+44 114 222 1914
Regent Court (DCS)
Full contact details
Dr Dawn Walker
School of Computer Science
Regent Court (DCS)
211 Portobello
Sheffield
S1 4DP
School of Computer Science
Regent Court (DCS)
211 Portobello
Sheffield
S1 4DP
- Profile
-
Dr Dawn Walker is a senior lecturer in the Computational Biology Group in the Department of Computer Science. Her primary research interest is the use of individual-based models to understand the function and structure of biological tissues.
She is also interested in multi-scale and multi-paradigm models in biology and medicine, and the use of bioelectric properties of epithelial tissues in early cancer diagnosis.
- Research interests
-
- Agent (individual) based Modelling in predicting emergent properties of biological tissues
- Multiscale Modelling in biological and biomedical applications
- Electrical Impedance Spectroscopy (EIS) for the diagnosis of early cancerous changes in epithelial tissues
- Publications
-
Journal articles
- An agent-based model for cell microenvironment simulation using FLAMEGPU2. Computers in Biology and Medicine, 179, 108831-108831.
- A MULTISCALE ORCHESTRATED COMPUTATIONAL FRAMEWORK TO REVEAL EMERGENT PHENOMENA IN NEUROBLASTOMA. Computer Methods and Programs in Biomedicine, 107742-107742.
- Mathematical model of clonal evolution proposes a personalised multi-modal therapy for high-risk neuroblastoma. Cancers, 15(7).
- Multiscale Model Development for Electrical Properties of Thyroid and Parathyroid Tissues. IEEE Open Journal of Engineering in Medicine and Biology, 1-9.
- LPCAT4 knockdown alters barrier integrity and cellular bioenergetics in human urothelium. International Journal of Molecular Sciences, 23(19).
- Position of the AI for Health Imaging (AI4HI) network on metadata models for imaging biobanks. European Radiology Experimental, 6(1).
- A theoretical analysis of the scale separation in a model to predict solid tumour growth.. J Theor Biol, 547, 111173.
- PRIMAGE project : predictive in silico multiscale analytics to support childhood cancer personalised evaluation empowered by imaging biomarkers. European Radiology Experimental, 4(1). View this article in WRRO
- From cell to multi-crypt: Agent-based models of the human colon suggests novel processes of field cancerisation. Journal of Computational Science. View this article in WRRO
- VPH-HF: A software framework for the execution of complex subject-specific physiology modelling workflows. Journal of Computational Science, 25, 101-114. View this article in WRRO
- A cellular based model of the colon crypt suggests novel effects for Apc phenotype in colorectal carcinogenesis. Journal of Computational Science, 24, 125-131. View this article in WRRO
- An agent-based model of anoikis in the colon crypt displays novel emergent behaviour consistent with biological observations. Royal Society Open Science, 4. View this article in WRRO
- Constructive Initialization of a Genetic Algorithm for the Solution of a Highly Constrained Departmental Timetabling Problem. International Journal of Soft Computing and Engineering, 6(4), 18-25. View this article in WRRO
- Characterization and Classification of Adherent Cells in Monolayer Culture using Automated Tracking and Evolutionary Algorithms.. BioSystems, 146, 110-121. View this article in WRRO
- Sources of variability in cytosolic calcium transients triggered by stimulation of homogeneous uro-epithelial cell monolayers. Journal of The Royal Society Interface, 12(105). View this article in WRRO
- Functional expression of purinergic P2 receptors and transient receptor potential channels by the human urothelium. American Journal of Physiology - Renal Physiology, 305(3).
- Measuring three-dimensional strain distribution in tendon. Journal of Microscopy, 249(3), 195-205.
- Cell-type-specific modelling of intracellular calcium signalling: a urothelial cell model.. J R Soc Interface, 10(86), 20130487.
- The modulatory effect of cell–cell contact on the tumourigenic potential of pre-malignant epithelial cells: a computational exploration.. J R Soc Interface, 10(78), 20120703.
- Constructing Complex 3D Biological Environments from Medical Imaging Using High Performance Computing. IEEE/ACM Transactions on Computational Biology and Bioinformatics (ACM), 9(3), 643-654.
- Using computational modeling to investigate sperm navigation and behavior in the female reproductive tract.. Theriogenology, 77(4), 703-716.
- Computational modelling of maternal interactions with spermatozoa: Potentials and prospects. Reproduction, Fertility and Development, 23(8), 976-989.
- Multi-scale interaction of particulate flow and the artery wall. Medical Engineering and Physics, 33(7), 840-848.
- A Complex Automata approach for in-stent restenosis: Two-dimensional multiscale modelling and simulations. Journal of Computational Science.
- Multi-scale interaction of particulate flow and the artery wall.. Med Eng Phys, 33(7), 840-848.
- Differential regulation of growth-promoting signalling pathways by E-cadherin. PLoS ONE, 5(10). View this article in WRRO
- High performance cellular level agent-based simulation with FLAME for the GPU.. Brief Bioinform, 11(3), 334-347.
- Anti-social cells: predicting the influence of E-cadherin loss on the growth of epithelial cell populations.. J Theor Biol, 262(3), 425-440.
- The virtual cell--a candidate co-ordinator for 'middle-out' modelling of biological systems.. Brief Bioinform, 10(4), 450-461.
- The Virtual Oviduct: An Essential Tool for the Application of Computational Biology Approaches to Investigation of Maternal Interaction with Gametes and Embryo.. Biology of Reproduction, 81(Suppl_1), 299-299.
- Modelling the interaction of haemodynamics and the artery wall: current status and future prospects.. Biomed Pharmacother, 62(8), 530-535.
- The application of multiscale modelling to the process of development and prevention of stenosis in a stented coronary artery.. Philos Trans A Math Phys Eng Sci, 366(1879), 3343-3360.
- MULTISCALE MODELLING: APPLICATION OF THE COMPLEX AUTOMATA SIMULATION TECHNIQUE (COAST). Journal of Biomechanics, 41, S482-S482.
- Epitheliometer: a real time impedance device for the detection of high grade cervical intraepithelial neoplasia. BJOG-INT J OBSTET GY, 115(1), 118-118.
- From pathway to population--a multiscale model of juxtacrine EGFR-MAPK signalling.. BMC Syst Biol, 2, 102. View this article in WRRO
- Impedimetric sensing of cells on polypyrrole-based conducting polymers. J BIOMED MATER RES A, 83A(2), 391-400.
- An integrated agent-mathematical model of the effect of intercellular signalling via the epidermal growth factor receptor on cell proliferation.. J Theor Biol, 242(3), 774-789.
- Modeling the effect of exogenous calcium on keratinocyte and HaCat cell proliferation and differentiation using an agent-based computational paradigm.. Tissue Eng, 12(8), 2301-2309.
- Comparison of human uterine cervical electrical impedance measurements derived using two tetrapolar probes of different sizes.. Biomed Eng Online, 5, 62. View this article in WRRO
- Modelling the electrical properties of bladder tissue--quantifying impedance changes due to inflammation and oedema.. Physiol Meas, 26(3), 251-268.
- Electrical bioimpedance readings increase with higher pressure applied to the measuring probe.. Physiol Meas, 26(2), S39-S47.
- Agent-based computational modeling of wounded epithelial cell monolayers.. IEEE Trans Nanobioscience, 3(3), 153-163. View this article in WRRO
- Development and validation of computational models of cellular interaction.. J Mol Histol, 35(7), 659-665. View this article in WRRO
- The epitheliome: agent-based modelling of the social behaviour of cells.. Biosystems, 76(1-3), 89-100. View this article in WRRO
- Modelling of epithelial tissue impedance measured using three different designs of probe.. Physiol Meas, 24(2), 605-623.
- A study of the morphological parameters of cervical squamous epithelium.. Physiol Meas, 24(1), 121-135.
- Modelled current distribution in cervical squamous tissue.. Physiol Meas, 23(1), 159-168.
- Modelling the electrical impedivity of normal and premalignant cervical tissue. ELECTRON LETT, 36(19), 1603-1604.
- The Use of Virtual Tissue Constructs That Include Morphological Variability to Assess the Potential of Electrical Impedance Spectroscopy to Differentiate between Thyroid and Parathyroid Tissues during Surgery. Sensors, 24(7), 2198-2198.
- Modeling the Effect of Exogenous Calcium on Keratinocyte and HaCat Cell Proliferation and Differentiation Using an Agent-Based Computational Paradigm. Tissue Engineering, 0(0), 060913044658037-060913044658037.
Conference proceedings papers
- Computational Modelling of Probe Configurations for Electrical Impedance Spectroscopy-based Differentiation of Thyroid and Parathyroid Tissues. 2023 IEEE International Symposium on Medical Measurements and Applications (MeMeA), 14 June 2023 - 16 June 2023.
- Automated Motion Analysis of Adherent Cells in Monolayer Culture (pp 185-194) View this article in WRRO
- The VPH Hypermodelling framework for cancer multiscale models in the clinical practice. Proceedings of the 2014 6th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation - The CHIC Project Workshop (IARWISOCI), 3 November 2014 - 4 November 2014. View this article in WRRO
- A theoretical model of cytosolic calcium elevation following wounding in urothelial cell monolayers. IC-MSQUARE 2012: INTERNATIONAL CONFERENCE ON MATHEMATICAL MODELLING IN PHYSICAL SCIENCES, Vol. 410
- Modelling sperm behaviour in a 3D environment. Proceedings of the 9th International Conference on Computational Methods in Systems Biology, CMSB'11 (pp 141-149)
- 3D Modelling of Complex Biological Structures: The Oviduct.. TPCG (pp 255-262)
- Using computational systems biology to investigate sperm navigation and transport in the female reproductive tract. Systems Biology in Maternal Communication with Gametes and Embryo. Opatija, Croatia, 9 May 2010 - 13 May 2010.
- Using the GPU and multi-core CPU to generate a 3D oviduct through feature extraction from histology slides. Proceedings of the 9th Int. Workshop on Parallel and Distributed Methods in Verification, PDMC 2010 - Joint with the 2nd Int. Workshop on High Performance Computational Systems Biology, HiBi 2010 (pp 78-87)
- The Virtual Oviduct: An Essential Tool for the Application of Computational Biology Approaches to Investigation of Maternal Interaction with Gametes and Embryo. BIOLOGY OF REPRODUCTION (pp 115-115)
- Towards a complex automata multiscale model of in-stent restenosis. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 5544 LNCS(PART 1) (pp 705-714)
- COAST: Modelling Restenosis and Stent Based Therapies. INTERNATIONAL CONFERENCE ON ADVANCEMENTS OF MEDICINE AND HEALTH CARE THROUGH TECHNOLOGY, Vol. 26 (pp 319-322)
- Finite element modelling of a cell stressing device. TISSUE ENGINEERING, Vol. 13(7) (pp 1697-1698)
Preprints
- An agent-based model for cell microenvironment simulation using FLAMEGPU2. Computers in Biology and Medicine, 179, 108831-108831.
- Grants
-
Current grants
- Electric Impedance Spectroscopy (EIS) and machine learning-based decision support system for early diagnosis of oral cancer, Yorkshire Cancer Research, 03/2024 - 02/2027, £496,656, as PI
- SANO: Centre for New Methods in Computational Diagnostics and Personalised Therapy, EC H2020, 08/2019 - 07/2026, £2,497,386, as Co-PI
Previous grants
- SBRI Phase 2: Prototype development, Industrial, 01/2020 - 05/2021, £178,944, as Co-PI
- Using mechanistic computational simulation and machine learning to inform instrument design for EIS-guided surgery, Industrial, 10/2019 - 09/2023, £106,804, as PI
- PRIMAGE: PRedictive In-silico Multiscale Analytics to support cancer personalized diaGnosis and prognosis, Empowered by imaging biomarkers, EC H2020, 12/2018 to 05/2023, £549,018, as PI
- CHIC: Computational Horizons in Cancer, EC FP7, 04/2013 to 03/2017, £777,005, as Co-PI
- A combined in vitro and in virtuo multi-scale approach to understanding individual and integrated cell behaviour during homeostasis and wound repair, The Wellcome Trust, 09/2010 to 09/2013, £140,547, as PI
- MeDDiCA: Medical Devices Design in Cardiovascular Applications, University College London, 09/2009 to 08/2013, £340,386, as Co-PI
- The Virtual Tendon - a multi-scale computational model of dnamical tissue remodelling, Arthritis Research Campaign, 09/2009 to 08/2012, £155,321, as PI
- Engineering Virus-like Nanoparticles for Targeting the Central Nervous System, EPSRC, 05/2009 to 08/2012, £2,109,411, as Co-PI
- Professional activities and memberships
-
- Member of the Complex Systems Modelling research group
- Deputy Director of Undergraduate Admissions