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Dr Steffen Bollmann
Dr

Steffen Bollmann

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Overview

Background

Dr Steffen Bollmann joined UQ’s School of Electrical Imaging and Computer Science in 2020 where he leads the Computational Imaging Group. The Group is developing computational methods to extract clinical and biological insights from magnetic resonance imaging (MRI) data. The aim is to make cutting-edge algorithms and tools available to a wide range of clinicians and researchers. This will enable better images, faster reconstruction times and the efficient extraction of clinical information to ensure a better understanding of a range of diseases. Dr Bollmann was appointed Artificial Intelligence (AI) lead for imaging at UQ’s Queensland Digital Health Centre (QDHeC) in 2023.

His research expertise is in quantitative susceptibility mapping, image segmentation and software applications to help researchers and clinicians access data and algorithms.

Dr Bollmann completed his PhD on multimodal imaging at the University Children’s Hospital and Swiss Federal Institute of Technology (ETH) Zurich, Switzerland.

In 2014 he joined the Centre for Advanced Imaging at UQ as a National Imaging Facility Fellow, where he pioneered the application of deep learning methods for quantitative imaging techniques, in particular Quantitative Susceptibility Mapping.

In 2019 he joined the Siemens Healthineers collaborations team at the MGH Martinos Center in Boston on a one-year industry exchange where he worked on the translation of fast imaging techniques into clinical applications.

Availability

Dr Steffen Bollmann is:
Available for supervision

Research interests

  • Reproducible Research Software

    Developing software to enable reproducible neuroimaging, such as www.Neurodesk.org

  • Computational Imaging

    Developing tools to make computational algorithms for medical imaging more accessible and robust.

  • Image Segmentation

    Developing new methods to segment medical imaging data to extract quantitative information.

  • Quantitative Susceptibility Mapping

    Developing new methods to increase the robustness of processing quantitative susceptibility mapping.

Research impacts

Strong industry collaborations to bring research algorithms into applications such as Quantitative Susceptibility Mapping with industry partner Siemens Healthineers and the Neurodesk project with industry partner Oracle Cloud.

Further information is available at www.mri.sbollmann.net and regular research updates can be found on linkedin (https://www.linkedin.com/in/steffen-bollmann-00725097/) mastodon (https://masto.ai/@Sbollmann_MRI) and twitter/X (https://twitter.com/sbollmann_mri)

Works

Search Professor Steffen Bollmann’s works on UQ eSpace

83 works between 2012 and 2024

1 - 20 of 83 works

2024

Journal Article

Building a Comprehensive Toolkit for Human Visual Cortex Parcellation

Ribeiro, Fernanda L., Bambridge-Lozan, Torin, Benson, Noah C., Schwarzkopf, D. Samuel, Puckett, Alexander M. and Bollmann, Steffen (2024). Building a Comprehensive Toolkit for Human Visual Cortex Parcellation. Journal of Vision, 24 (10), 691. doi: 10.1167/jov.24.10.691

Building a Comprehensive Toolkit for Human Visual Cortex Parcellation

2024

Journal Article

VesselBoost: a Python toolbox for small blood vessel segmentation in human magnetic resonance angiography data

Xu, Marshall, Ribeiro, Fernanda L., Barth, Markus, Bernier, Michaël, Bollmann, Steffen, Chatterjee, Soumick, Cognolato, Francesco, Gulban, Omer F., Itkyal, Vaibhavi, Liu, Siyu, Mattern, Hendrik, Polimeni, Jonathan R., Shaw, Thomas B., Speck, Oliver and Bollmann, Saskia (2024). VesselBoost: a Python toolbox for small blood vessel segmentation in human magnetic resonance angiography data. Aperture Neuro, 4, 1-13. doi: 10.52294/001c.123217

VesselBoost: a Python toolbox for small blood vessel segmentation in human magnetic resonance angiography data

2024

Journal Article

Large‐scale analysis of structural brain asymmetries during neurodevelopment: Associations with age and sex in 4265 children and adolescents

Kurth, F., Schijven, D., van den Heuvel, O. A., Hoogman, M., van Rooij, D., Stein, D. J., Buitelaar, J. K., Bölte, S., Auzias, G., Kushki, A., Venkatasubramanian, G., Rubia, K., Bollmann, S., Isaksson, J., Jaspers‐Fayer, F., Marsh, R., Batistuzzo, M. C., Arnold, P. D., Bressan, R. A., Stewart, S. E., Gruner, P., Sorensen, L., Pan, P. M., Silk, T. J., Gur, R. C., Cubillo, A. I., Haavik, J., O'Gorman Tuura, R. L., Hartman, C. A. ... Luders, E. (2024). Large‐scale analysis of structural brain asymmetries during neurodevelopment: Associations with age and sex in 4265 children and adolescents. Human Brain Mapping, 45 (11) e26754, e26754. doi: 10.1002/hbm.26754

Large‐scale analysis of structural brain asymmetries during neurodevelopment: Associations with age and sex in 4265 children and adolescents

2024

Conference Publication

Aberrations in the Ventral Tegmental Area predict depression severity in the general population

Khalife, Sarah, Oestreich, Lena, Bollmann, Steffen and Zalesky, Andrew (2024). Aberrations in the Ventral Tegmental Area predict depression severity in the general population. Organization for Human Brain Mapping, Seoul, South Korea, 23-27 June 2024.

Aberrations in the Ventral Tegmental Area predict depression severity in the general population

2024

Journal Article

Author Correction: brainlife.io: a decentralized and open-source cloud platform to support neuroscience research

Hayashi, Soichi, Caron, Bradley A., Heinsfeld, Anibal Sólon, Vinci-Booher, Sophia, McPherson, Brent, Bullock, Daniel N., Bertò, Giulia, Niso, Guiomar, Hanekamp, Sandra, Levitas, Daniel, Ray, Kimberly, MacKenzie, Anne, Avesani, Paolo, Kitchell, Lindsey, Leong, Josiah K., Nascimento-Silva, Filipi, Koudoro, Serge, Willis, Hanna, Jolly, Jasleen K., Pisner, Derek, Zuidema, Taylor R., Kurzawski, Jan W., Mikellidou, Kyriaki, Bussalb, Aurore, Chaumon, Maximilien, George, Nathalie, Rorden, Christopher, Victory, Conner, Bhatia, Dheeraj ... Pestilli, Franco (2024). Author Correction: brainlife.io: a decentralized and open-source cloud platform to support neuroscience research. Nature Methods, 21 (6), 1131-1131. doi: 10.1038/s41592-024-02296-5

Author Correction: brainlife.io: a decentralized and open-source cloud platform to support neuroscience research

2024

Journal Article

Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging

Renton, Angela I., Dao, Thuy T., Johnstone, Tom, Civier, Oren, Sullivan, Ryan P., White, David J., Lyons, Paris, Slade, Benjamin M., Abbott, David F., Amos, Toluwani J., Bollmann, Saskia, Botting, Andy, Campbell, Megan E. J., Chang, Jeryn, Close, Thomas G., Dörig, Monika, Eckstein, Korbinian, Egan, Gary F., Evas, Stefanie, Flandin, Guillaume, Garner, Kelly G., Garrido, Marta I., Ghosh, Satrajit S., Grignard, Martin, Halchenko, Yaroslav O., Hannan, Anthony J., Heinsfeld, Anibal S., Huber, Laurentius, Hughes, Matthew E. ... Bollmann, Steffen (2024). Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging. Nature Methods, 21 (2), 804-808. doi: 10.1038/s41592-023-02145-x

Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging

2024

Journal Article

Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging

Renton, Angela I., Dao, Thuy T., Johnstone, Tom, Civier, Oren, Sullivan, Ryan P., White, David J., Lyons, Paris, Slade, Benjamin M., Abbott, David F., Amos, Toluwani J., Bollmann, Saskia, Botting, Andy, Campbell, Megan E. J., Chang, Jeryn, Close, Thomas G., Dörig, Monika, Eckstein, Korbinian, Egan, Gary F., Evas, Stefanie, Flandin, Guillaume, Garner, Kelly G., Garrido, Marta I., Ghosh, Satrajit S., Grignard, Martin, Halchenko, Yaroslav O., Hannan, Anthony J., Heinsfeld, Anibal S., Huber, Laurentius, Hughes, Matthew E. ... Bollmann, Steffen (2024). Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging. Nature Methods, 21 (5), 804-808. doi: 10.1038/s41592-023-02145-x

Neurodesk: an accessible, flexible and portable data analysis environment for reproducible neuroimaging

2024

Journal Article

brainlife.io: a decentralized and open-source cloud platform to support neuroscience research

Hayashi, Soichi, Caron, Bradley A., Heinsfeld, Anibal Sólon, Vinci-Booher, Sophia, McPherson, Brent, Bullock, Daniel N., Bertò, Giulia, Niso, Guiomar, Hanekamp, Sandra, Levitas, Daniel, Ray, Kimberly, MacKenzie, Anne, Avesani, Paolo, Kitchell, Lindsey, Leong, Josiah K., Nascimento-Silva, Filipi, Koudoro, Serge, Willis, Hanna, Jolly, Jasleen K., Pisner, Derek, Zuidema, Taylor R., Kurzawski, Jan W., Mikellidou, Kyriaki, Bussalb, Aurore, Chaumon, Maximilien, George, Nathalie, Rorden, Christopher, Victory, Conner, Bhatia, Dheeraj ... Pestilli, Franco (2024). brainlife.io: a decentralized and open-source cloud platform to support neuroscience research. Nature Methods, 21 (5), 809-813. doi: 10.1038/s41592-024-02237-2

brainlife.io: a decentralized and open-source cloud platform to support neuroscience research

2024

Journal Article

Adiposity associates with lower plasma resolvin E1 (Rve1): a population study

Barden, Anne, Shinde, Sujata, Beilin, Lawrence J., Phillips, Michael, Adams, Leon, Bollmann, Steffen and Mori, Trevor A. (2024). Adiposity associates with lower plasma resolvin E1 (Rve1): a population study. International Journal of Obesity, 48 (5), 725-732. doi: 10.1038/s41366-024-01482-x

Adiposity associates with lower plasma resolvin E1 (Rve1): a population study

2024

Journal Article

Improving quantitative susceptibility mapping for the identification of traumatic brain injury neurodegeneration at the individual level

Domínguez D, Juan F, Stewart, Ashley, Burmester, Alex, Akhlaghi, Hamed, O'Brien, Kieran, Bollmann, Steffen and Caeyenberghs, Karen (2024). Improving quantitative susceptibility mapping for the identification of traumatic brain injury neurodegeneration at the individual level. Zeitschrift für Medizinische Physik. doi: 10.1016/j.zemedi.2024.01.001

Improving quantitative susceptibility mapping for the identification of traumatic brain injury neurodegeneration at the individual level

2024

Conference Publication

Computationally efficient multi-echo QSM

Eckstein, Korbinian, Dao, Thanh, Stewart, Ashley, Robinson, Simon, Barth, Markus and Bollmann, Steffen (2024). Computationally efficient multi-echo QSM. 2023 ISMRM & ISMRT Annual Meeting & Exhibition, Toronto, ON, Canada, 3-8 June 2023. Berkeley, CA, United States: International Society for Magnetic Resonance in Medicine. doi: 10.58530/2023/4184

Computationally efficient multi-echo QSM

2024

Journal Article

Three-dimensional EPI with shot-selective CAIPIRIHANA for rapid high-resolution quantitative susceptibility mapping at 3 T

Tourell, Monique, Jin, Jin, Bachrata, Beata, Stewart, Ashley, Ropele, Stefan, Enzinger, Christian, Bollmann, Saskia, Bollmann, Steffen, Robinson, Simon Daniel, O'Brien, Kieran and Barth, Markus (2024). Three-dimensional EPI with shot-selective CAIPIRIHANA for rapid high-resolution quantitative susceptibility mapping at 3 T. Magnetic Resonance in Medicine, 92 (3), 997-1010. doi: 10.1002/mrm.30101

Three-dimensional EPI with shot-selective CAIPIRIHANA for rapid high-resolution quantitative susceptibility mapping at 3 T

2023

Conference Publication

Developing a secure, browser-based and interactive image segmentation system for medical images

Dao, Thuy, Rorden, Chris, Eckstein, Korbinian, Haehn, Daniel, Varade, Shruti and Bollmann, Steffen (2023). Developing a secure, browser-based and interactive image segmentation system for medical images. International Society for Magnetic Resonance in Medicine ANZ Chapter, Brisbane, QLD, Australia, 30 November - 1 December 2023.

Developing a secure, browser-based and interactive image segmentation system for medical images

2023

Journal Article

Super-resolution QSM in little or No Additional Time for Imaging (NATIve) using 2D EPI imaging in 3 orthogonal planes

Bachrata, Beata, Bollmann, Steffen, Jin, Jin, Tourell, Monique, Dal-Bianco, Assunta, Trattnig, Siegfried, Barth, Markus, Ropele, Stefan, Enzinger, Christian and Robinson, Simon Daniel (2023). Super-resolution QSM in little or No Additional Time for Imaging (NATIve) using 2D EPI imaging in 3 orthogonal planes. NeuroImage, 283 120419, 1-17. doi: 10.1016/j.neuroimage.2023.120419

Super-resolution QSM in little or No Additional Time for Imaging (NATIve) using 2D EPI imaging in 3 orthogonal planes

2023

Other Outputs

Deep-learning-enabled differentiation between intraprostatic gold fiducial markers and calcification in quantitative susceptibility mapping

Stewart, Ashley Wilton, Goodwin, Jonathan, Richardson, Matthew, Robinson, Simon Daniel, O’Brien, Kieran, Jin, Jin, Barth, Markus and Bollmann, Steffen (2023). Deep-learning-enabled differentiation between intraprostatic gold fiducial markers and calcification in quantitative susceptibility mapping.

Deep-learning-enabled differentiation between intraprostatic gold fiducial markers and calcification in quantitative susceptibility mapping

2023

Journal Article

Improved dynamic distortion correction for fMRI using single‐echo EPI and a readout‐reversed first image (REFILL)

Robinson, Simon Daniel, Bachrata, Beata, Eckstein, Korbinian, Bollmann, Saskia, Bollmann, Steffen, Dymerska, Barbara, Hodono, Shota, Cloos, Martijn, Tourell, Monique, Jin, Jin, O'Brien, Kieran, Reutens, David C., Trattnig, Siegfried, Enzinger, Christian and Barth, Markus (2023). Improved dynamic distortion correction for fMRI using single‐echo EPI and a readout‐reversed first image (REFILL). Human Brain Mapping, 44 (15), 5095-5112. doi: 10.1002/hbm.26440

Improved dynamic distortion correction for fMRI using single‐echo EPI and a readout‐reversed first image (REFILL)

2023

Journal Article

Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3

Lenita Ribeiro, Fernanda, York, Ashley, Zavitz, Elizabeth, Bollmann, Steffen, Rosa, Marcello G.P. and Puckett, Alexander (2023). Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3. eLife e86439. doi: 10.7554/eLife.86439

Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3

2023

Journal Article

Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3

Ribeiro, Fernanda Lenita, York, Ashley, Zavitz, Elizabeth, Bollmann, Steffen, Rosa, Marcello GP and Puckett, Alexander (2023). Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3. eLife, 12. doi: 10.7554/elife.86439

Variability of visual field maps in human early extrastriate cortex challenges the canonical model of organization of V2 and V3

2023

Conference Publication

Investigating the computational reproducibility of Neurodesk

Dao, Thuy, Renton, Angela, Narayanan, Aswin, Barth, Markus and Bollmann, Steffen (2023). Investigating the computational reproducibility of Neurodesk. International Society for Magnetic Resonance in Medicine, Toronto, ON, Canada, 3-8 June 2023.

Investigating the computational reproducibility of Neurodesk

2023

Conference Publication

Proceedings of the OHBM Brainhack 2021

Nikolaidis, Aki, Manchini, Matteo, Auer, Tibor, L. Bottenhorn, Katherine, Alonso-Ortiz, Eva, Gonzalez-Escamilla, Gabriel, Valk, Sofie, Glatard, Tristan, Selim Atay, Melvin, M.M. Bayer, Johanna, Bijsterbosch, Janine, Algermissen, Johannes, Beck, Natacha, Bermudez, Patrick, Poyraz Bilgin, Isil, Bollmann, Steffen, Bradley, Claire, E.J. Campbell, Megan, Caron, Bryan, Civier, Oren, Pedro Coelho, Luis, El Damaty, Shady, Das, Samir, Dugré, Mathieu, Earl, Eric, Evas, Stefanie, Lopes Fischer, Nastassja, Fu Yap, De, G. Garner, Kelly ... P. Zwiers, Marcel (2023). Proceedings of the OHBM Brainhack 2021. OHBM Brainhack 2021, Online, 16-18 June 2021. Organization for Human Brain Mapping. doi: 10.52294/258801b4-a9a9-4d30-a468-c43646391211

Proceedings of the OHBM Brainhack 2021

Funding

Current funding

  • 2024 - 2026
    Neurodesk: a software platform for reproducible neuroimaging
    Wellcome Trust Discretionary Award
    Open grant
  • 2022 - 2025
    Robust, valid and interpretable deep learning for quantitative imaging
    ARC Linkage Projects
    Open grant
  • 2017 - 2024
    ARC Training Centre for Innovation in Biomedical Imaging Technology
    ARC Industrial Transformation Training Centres
    Open grant

Past funding

  • 2024
    Proof of concept study for replacing preoperative spine CT with MRI scans (QDHeC Sub-Project 004.A)
    Stryker European Operations Ltd
    Open grant
  • 2023
    Research advisory for University of South Carolina's 'Improving usage of the Aphasia Research Cohort (ARC) repository' project
    University of South Carolina
    Open grant
  • 2021 - 2022
    Translating deep learning models into medical imaging applications using secure cloud computing.
    UQ Knowledge Exchange & Translation Fund
    Open grant
  • 2021 - 2023
    Australian Electrophysiology Data Analytics PlaTform (AEDAPT) (ARDC grant administered by Swinburne University of Technology)
    Swinburne University of Technology
    Open grant
  • 2015 - 2017
    Integrating high resolution anatomy, structural and functional connectivity with EEG at 7T: Towards biomarkers for neurodegenerative diseases
    UQ Postdoctoral Research Fellowship
    Open grant

Supervision

Availability

Dr Steffen Bollmann is:
Available for supervision

Before you email them, read our advice on how to contact a supervisor.

Available projects

  • Reproducible Neuroimaging Framework NeuroDesk

    This project provides a reproducible neuroimaging data processing platform based on software containers (docker and singularity). More information about this project can be found in the Nature Methods article: https://rdcu.be/dQJjq

    The candidate will be able to learn about container technology and add new features to the platform, like the support of GPUs for deep learning applications, the support for M1/Arm processors by using muli-architecture builds, develop cloud deployment patterns using Kubernetes, build large language models to support users in programming neuroimaging applications and many more.

Supervision history

Current supervision

  • Doctor Philosophy

    Robust Deep learning for Quantitative Susceptibility Mapping

    Principal Advisor

    Other advisors: Dr Fernanda Lenita Ribeiro

  • Doctor Philosophy

    Computational Medical Imaging

    Principal Advisor

    Other advisors: Dr Fernanda Lenita Ribeiro, Mr Aswin Narayanan

  • Doctor Philosophy

    Structure-function brain network dynamics in post-stroke depression

    Associate Advisor

    Other advisors: Dr Lena Oestreich

  • Doctor Philosophy

    Development of a deep learning framework for multi-modal medical imaging

    Associate Advisor

    Other advisors: Professor Markus Barth

Completed supervision

Media

Enquiries

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