Improved Simultaneous Multi-Slice Functional MRI Using Self-supervised Deep Learning

Omer Burak Demirel, Burhaneddin Yaman, Logan Dowdle, Steen Moeller, Luca Vizioli, Essa Yacoub, John Strupp, Cheryl A. Olman, Kamil Ugurbil, Mehmet Akcakaya

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Scopus citations


Functional MRI (fMRI) is commonly used for interpreting neural activities across the brain. Numerous accelerated fMRI techniques aim to provide improved spatiotemporal resolutions. Among these, simultaneous multi-slice (SMS) imaging has emerged as a powerful strategy, becoming a part of large-scale studies, such as the Human Connectome Project. However, when SMS imaging is combined with in-plane acceleration for higher acceleration rates, conventional SMS reconstruction methods may suffer from noise amplification and other artifacts. Recently, deep learning (DL) techniques have gained interest for improving MRI reconstruction. However, these methods are typically trained in a supervised manner that necessitates fully-sampled reference data, which is not feasible in highly-accelerated fMRI acquisitions. Self-supervised learning that does not require fully-sampled data has recently been proposed and has shown similar performance to supervised learning. However, it has only been applied for in-plane acceleration. Furthermore the effect of DL reconstruction on subsequent fMRI analysis remains unclear. In this work, we extend self-supervised DL reconstruction to SMS imaging. Our results on prospectively 10-fold accelerated 7T fMRI data show that self-supervised DL reduces reconstruction noise and suppresses residual artifacts. Subsequent fMRI analysis remains unaltered by DL processing, while the improved temporal signal-to-noise ratio produces higher coherence estimates between task runs.

Original languageEnglish (US)
Title of host publication55th Asilomar Conference on Signals, Systems and Computers, ACSSC 2021
EditorsMichael B. Matthews
PublisherIEEE Computer Society
Number of pages5
ISBN (Electronic)9781665458283
StatePublished - 2021
Event55th Asilomar Conference on Signals, Systems and Computers, ACSSC 2021 - Virtual, Pacific Grove, United States
Duration: Oct 31 2021Nov 3 2021

Publication series

NameConference Record - Asilomar Conference on Signals, Systems and Computers
ISSN (Print)1058-6393


Conference55th Asilomar Conference on Signals, Systems and Computers, ACSSC 2021
Country/TerritoryUnited States
CityVirtual, Pacific Grove

Bibliographical note

Funding Information:
ACKNOWLEDGMENTS Grant support: NIH, Grant numbers: R01HL153146, U01EB025144, P41EB027061, P30NS076408; NSF, Grant number: CAREER CCF-1651825.

Publisher Copyright:
© 2021 IEEE.


  • accelerated imaging
  • deep learning
  • functional magnetic resonance imaging
  • human connectome project
  • retinotopic mapping
  • self-supervised learning

Center for Magnetic Resonance Research (CMRR) tags

  • IRP


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