Dr Roman Bauer
Biography
Roman received his Bachelor's and Master's Degree in Computational Science and Engineering from ETH Zuerich, Switzerland. Afterwards, he did his doctoral studies at the Institute for Neuroinformatics (INI) at ETH Zürich and University of Zürich, working on simulations of cortical development. He then joined Newcastle University in September 2013 as a postdoctoral research associate and afterwards started his MRC fellowship project in September 2016 as an independent principal investigator. In June 2018 he took up an EPSRC UKRI Innovation Fellowship at the School of Computing and a joint affiliation with the Institute of Genetic Medicine, both at Newcastle University. In August 2020 he then became a lecturer at the Department of Computer Science, University of Surrey.
Research
Research interests
Roman Bauer's research focus on the computational modelling and analysis of biological dynamics, in particular those of the brain. He devises and analyses computational and statistical models of how tissue evolves (e.d. during development, degeneration or other types of processing, e.g. cryopreservation), in order to better understand the system dynamics. These models incorporate the interaction between cellular processes and physical laws of the extracellular environment. Since such a detailed approach can be very demanding from a computational point of view, his research also involves modern computing approaches and IT-related collaboration.
Research projects
We employ innovative computational modelling to optimise cryopreservation protocols.
We use agent-based computational modelling and use various biological data to model the development of the retina.
We make use of advanced computational modelling and analysis techniques to better understand and leverage how neural circuits self-organise and produce function.
We use AI methods to model how the brain changes during development and ageing, in health as well as in disease. To inform such modelling, we make use of various data, including retinal images, neuroimaging data and EEG data.
Research collaborations
BioDynaMo collaboration. This is an international collaboration in Computational Biology. More information can be found at www.biodynamo.org as well as www.romanbauer.net.
My publications
Highlights
Breitwieser, L., Hesam, A., Montigny, J., Vavourakis, V., Iosif, A., Jennings, J., Kaiser, M., Manca, M., Di Meglio, A. and Al-Ars, Z., Rademakers, F., Bauer, R. 2021. BioDynaMo: an agent-based simulation platform for scalable computational biology research. Bioinformatics.
Bauer, R., Clowry, G.J. and Kaiser, M., 2021. Creative destruction: a basic computational model of cortical layer formation. Cerebral Cortex, 31(7), pp.3237-3253.
Pegah Kassraian-Fard, Michael Pfeiffer, Roman Bauer. A generative growth model for thalamocortical axonal branching in primary visual cortex. PLoS Computational Biology, 2020
Peraza, L.R., Díaz-Parra, A., Kennion, O., Moratal, D., Taylor, J.P., Kaiser, M., Bauer, R. and Alzheimer's Disease Neuroimaging Initiative, 2019. Structural connectivity centrality changes mark the path toward Alzheimer's disease. Alzheimer's & Dementia: Diagnosis, Assessment & Disease Monitoring, 11, pp.98-107.
Additional publications
Varghese, D., Bauer, R., Baxter-Beard, D., Muggleton, S. and Tamaddoni-Nezhad, A., Human-like rule learning from images using one-shot hypothesis derivation.
Cogno, N., Bauer, R. and Durante, M., 2022. A 3D Agent-Based Model of Lung Fibrosis. Symmetry, 14(1), p.90.
Axenie, C., Bauer, R. and Martínez, M.R., 2021. The Multiple Dimensions of Networks in Cancer: A Perspective. Symmetry, 13(9), p.1559.
de Montigny, J., Iosif, A., Breitwieser, L., Manca, M., Bauer, R. and Vavourakis, V., 2021. An in silico hybrid continuum-/agent-based procedure to modelling cancer development: Interrogating the interplay amongst glioma invasion, vascularity and necrosis. Methods, 185, pp.94-104.
Bauer, R. and Kaiser, M., 2017. Nonlinear growth: an origin of hub organization in complex networks. Royal Society open science, 4(3), p.160691.
Zubler, F., Hauri, A., Pfister, S., Bauer, R., Anderson, J.C., Whatley, A.M. and Douglas, R.J., 2013. Simulating cortical development as a self constructing process: a novel multi-scale approach combining molecular and physical aspects. PLoS Comput Biol, 9(8), p.e1003173.