Cape Town - 2026 ISMRM-ISMRT Annual Meeting and Exhibition
9 May 2026 – 14 May 2026 · Cape Town, South Africa
505-04-005 ISMRM Abstract

Modeling effects of EPI readout on laminar profiles of spin-echo BOLD via biophysical simulations using realistic vasculature

Primary: Brain Function and fMRI - fMRI Acquisition
Secondary: Acquisition & Reconstruction - Signal Modeling
505-04-005 · Mesoscale Functional MRI · Wednesday, 13 May, 4:00 PM–5:50 PM · Ballroom West
Keywords: Precision & Accuracy Microstructure Neuro Pulse Sequence Design Signal Modeling
Accepted
Grant Hartung 1, Avery Berman2,3, Daniel Haenelt4,5,6, Dominik Schillinger1, Jonathan R Polimeni7,8,9
1Institute for Mechanics, Computational Mechanics Group, Technical University of Darmstadt, Darmstadt, Germany
2Department of Physics, Carleton University, Ottawa, Canada
3University of Ottawa Institute of Mental Research at The Royal, Ottawa, Canada
4Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital and Harvard Medical School, Boston, United States of America
5Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital and Harvard Medical School, Charlestown, United States of America
6Harvard Medical School, Boston, United States of America
7Stanford University, Stanford, United States of America
8Richard M. Lucas Center for Imaging, Stanford University, Stanford, United States of America
9Department of Radiology, Stanford Medicine, Stanford, United States of America
Presenting Author: Grant Hartung

Synopsis

Motivation:
Goals:
Approach:
Results:
Full abstract & presentation

The full text, figures, and any recorded presentation for this abstract are not shown here. Log in if you are a member or registered attendee with access.

Full abstracts, figures, and presentations for Cape Town - 2026 ISMRM-ISMRT Annual Meeting and Exhibition are available to registered attendees. This content becomes freely available to the public roughly two years after the meeting.

To request or purchase access, contact the ISMRM Central Office at info@ismrm.org.

Log in

References

1. Hartung, G., Berman, A. J. L., Sakadžić, S., Linninger, A., Boas, D. & Polimeni, J. R. Biophysical simulations of BOLD fMRI using realistic microvascular models: comparing hemodynamics between humans and mice. bioRxiv (2025) doi:10.1101/2025.10.08.680976. [doi]
2. Gagnon, L., Sakadžić, S., Lesage, F., Musacchia, J. J., Lefebvre, J., Fang, Q., Yücel, M. A., Evans, K. C., Mandeville, E. T., Cohen-Adad, J., Polimeni, J. R., Yaseen, M. A., Lo, E. H., Greve, D. N., Buxton, R. B., Dale, A. M., Devor, A. & Boas, D. A. Quantifying the microvascular origin of BOLD-fMRI from first principles with two-photon microscopy and an oxygen-sensitive nanoprobe. J. Neurosci. 35, 3663–3675 (2015) doi:10.1523/JNEUROSCI.3555-14.2015. [doi]
3. Báez-Yáñez, M. G. & Petridou, N. Biophysical modeling: An approach for understanding the physiological fingerprint of the BOLD fMRI signal. in Computational and Network Modeling of Neuroimaging Data 119–157 (Elsevier, 2024).
4. Hartung, G., Gomez, D., Berman, A. J. L. & Polimeni, J. R. A novel biophysical simulation framework for intravascular MRI signals using 3D Vascular Anatomical Networks applied to VASO-fMRI. in vol. 32 (2024). doi:10.1002/mrm.28871. [doi]
5. Genois, É., Gagnon, L. & Desjardins, M. Modeling of vascular space occupancy and BOLD functional MRI from first principles using real microvascular angiograms. Magn. Reson. Med. 85, 456–468 (2021).
6. Scheffler, K., Engelmann, J. & Heule, R. BOLD sensitivity and vessel size specificity along CPMG and GRASE echo trains. Magn. Reson. Med. 86, 2076–2083 (2021).
7. Duyn, J. Specificity of high-resolution BOLD and CBF fMRI at 7 T. Magn. Reson. Med. Off. J. Int. Soc. Magn. Reson. Med. 51, 644–645 (2004) doi:10.1002/mrm.20040. [doi]
8. Birn, R. & Bandettini, P. The effect of T2’changes on spin-echo EPI-derived brain activation maps. in Proceedings of the 10th annual meeting of ISMRM, Honululu (Abstract 1324) (2002).
9. Goense, J. B. & Logothetis, N. K. Laminar specificity in monkey V1 using high-resolution SE-fMRI. Magn. Reson. Imaging 24, 381–392 (2006) doi:10.1016/j.mri.2005.12.032. [doi]
10. Wang, F., Dong, Z., Wald, L. L., Polimeni, J. R. & Setsompop, K. Simultaneous pure T2 and varying T2′-weighted BOLD fMRI using Echo Planar Time-resolved Imaging for mapping cortical-depth dependent responses. NeuroImage 245, 118641 (2021) doi:10.1016/j.neuroimage.2021.118641. [doi]
11. Haenelt, D., Dong, Z., Hu, Z., Setsompop, K., Wang, F. & Polimeni, J. R. Comparing BOLD Contamination In CBV-Based FMRI With Conventional EPI And Echo-Planar Time-Resolved Imaging (EPTI) At 7 T. Proc. Int. Soc. Magn. Reson. Med. (2025).
12. Monreal-Madrigal, A., Kurban, D., Huber, L., Ivanov, D., Boulant, N. & Poser, B. A. Combining the benefits of 3D acquisitions and spiral readouts for VASO fMRI at UHF. Imaging Neurosci. 2, 1–14 (2024) doi:10.1162/imag_a_00308. [doi]
13. Hetzer, S., Mildner, T. & Möller, H. E. A modified EPI sequence for high-resolution imaging at ultra-short echo time. Magn. Reson. Med. 65, 165–175 (2011) doi:10.1002/mrm.22610. [doi]
14. Berman, A., Wang, F., Setsompop, K., Chen, J. J. & Polimeni, J. Biophysical simulations of the BOLD fMRI signal using realistic imaging gradients: Understanding macrovascular contamination in Spin-Echo EPI. in Proceedings of the International Society for Magnetic Resonance in Medicine 3398 (2021).
15. Uhlirova, H., Kılıç, K., Tian, P., Thunemann, M., Desjardins, M., Saisan, P. A., Sakadžić, S., Ness, T. V., Mateo, C., Cheng, Q., Weldy, K. L., Razoux, F., Vandenberghe, M., Cremonesi, J. A., Ferri, C. G. L., Nizar, K., Sridhar, V. B., Steed, T. C., Abashin, M., Fainman, Y., Masliah, E., Djurovic, S., Andreassen, O. A., Silva, G. A., Boas, D. A., Kleinfeld, D., Buxton, R. B., Einevoll, G. T., Dale, A. M. & Devor, A. Cell type specificity of neurovascular coupling in cerebral cortex. Elife 5, e14315 (2016) doi:10.7554/eLife.14315. [doi]
16. Tian, P., Teng, I. C., May, L. D., Kurz, R., Lu, K., Scadeng, M., Hillman, E. M. C., Crespigny, A. J. D., D’Arceuil, H. E., Mandeville, J. B., Marota, J. J. A., Rosen, B. R., Liu, T. T., Boas, D. A., Buxton, R. B., Dale, A. M. & Devor, A. Cortical depth-specific microvascular dilation underlies laminar differences in blood oxygenation level-dependent functional MRI signal. Proc. Natl. Acad. Sci. 107, 15246–15251 (2010) doi:10.1073/pnas.1006735107. [doi]
17. Hartung, G., Pfannmoeller, J. P., Berman, A. J. & Polimeni, J. R. Simulated fMRI responses using human Vascular Anatomical Network models with varying architecture and dynamics. in Proceedings of the International Society for Magnetic Resonance in Medicine vol. 30 (2022).
18. Pathak, A. P., Ward, B. D. & Schmainda, K. M. A novel technique for modeling susceptibility-based contrast mechanisms for arbitrary microvascular geometries: the finite perturber method. NeuroImage 40, 1130–1143 (2008) doi:10.1016/j.neuroimage.2008.01.022. [doi]
19. Weisskoff, R., Zuo, C. S., Boxerman, J. L. & Rosen, B. R. Microscopic susceptibility variation and transverse relaxation: theory and experiment. Magn. Reson. Med. 31, 601–610 (1994) doi:10.1002/mrm.1910310605. [doi]
20. Báez-Yánez, M. G., Ehses, P., Mirkes, C., Tsai, P. S., Kleinfeld, D. & Scheffler, K. The impact of vessel size, orientation and intravascular contribution on the neurovascular fingerprint of BOLD bSSFP fMRI. NeuroImage 163, 13–23 (2017) doi:10.1016/j.neuroimage.2017.09.015. [doi]
21. Viessmann, O., Scheffler, K., Bianciardi, M., Wald, L. L. & Polimeni, J. R. Dependence of resting-state fMRI fluctuation amplitudes on cerebral cortical orientation relative to the direction of B0 and anatomical axes. NeuroImage 196, 337–350 (2019) doi:10.1016/j.neuroimage.2019.04.036. [doi]
22. Fracasso, A., Luijten, P. R., Dumoulin, S. O. & Petridou, N. Laminar imaging of positive and negative BOLD in human visual cortex at 7 T. Neuroimage 164, 100–111 (2018) doi:10.1016/j.neuroimage.2017.02.038. [doi]
23. Reichenbach, J. R., Venkatesan, R., Yablonskiy, D. A., Thompson, M. R., Lai, S. & Haacke, E. M. Theory and application of static field inhomogeneity effects in gradient-echo imaging. J. Magn. Reson. Imaging 7, 266–279 (1997) doi:10.1002/jmri.1880070203. [doi]

Cite this abstract

http://echo.ismrm.org/p/ISMRM2026/505-04-005