The developing Human Connectome Project fetal functional MRI release: Methods and data structures

Karolis, V. R.; Cordero-Grande, L.; Price, A.; Hughes, E.; Fitzgibbon, S. P.; Kyriakopoulou, V.; Uus, A.; Harper, N.; Prokopenko, D.; Bridglal, D.; Willers Moore, J.; Wilson, S.; Pietsch, M.; Christiaens, D.; Deprez, M.; Williams, L. Z. J.; Robinson, E. C.; Makropoulos, A.; Farahibozorg, S.-R.; O'Muircheartaigh, J.; Rutherford, M.; Rueckert, D.; Edwards, D.; Arichi, T.; Smith, S. M.; Duff, E.; Hajnal, J. V.

doi:10.1101/2024.06.13.598863

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bioRxiv · 10.1101/2024.06.13.598863

The developing Human Connectome Project fetal functional MRI release: Methods and data structures

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Abstract

Recent advances in fetal fMRI present a new opportunity for neuroscience to study functional human brain connectivity at the time of its emergence. Progress in the field however has been hampered by the lack of openly available datasets that can be exploited by researchers across disciplines to develop methods that would address the unique challenges associated with imaging and analysing functional brain in utero, such as unconstrained head motion, dynamically evolving geometric distortions, or inherently low signal-to-noise ratio. Here we describe the developing Human Connectome Projects release of the largest open access fetal fMRI dataset to date, containing 275 scans from 255 fetuses and spanning the period of 20.86 to 38.29 post-menstrual weeks. We present a systematic approach to its pre-processing, implementing multi-band soft SENSE reconstruction, dynamic distortion corrections via phase unwrapping method, slice-to-volume reconstruction and a tailored temporal filtering model, with attention to the prominent sources of structured noise in the in utero fMRI. The dataset is accompanied with an advanced registration infrastructure, enabling group-level data fusion, and contains outputs from the main intermediate processing steps. This allows for various levels of data exploration by the imaging and neuroscientific community, starting from the development of robust pipelines for anatomical and temporal corrections to methods for elucidating the development of functional connectivity in utero. By providing a high-quality template for further method development and benchmarking, the release of the dataset will help to advance fetal fMRI to its deserved and timely place at the forefront of the efforts to build a life-long connectome of the human brain.

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Karolis, V. R., Cordero-Grande, L., Price, A., Hughes, E., Fitzgibbon, S. P., Kyriakopoulou, V., Uus, A., Harper, N., Prokopenko, D., Bridglal, D., Willers Moore, J., Wilson, S., Pietsch, M., Christiaens, D., Deprez, M., Williams, L. Z. J., Robinson, E. C., Makropoulos, A., Farahibozorg, S.-R., O'Muircheartaigh, J., Rutherford, M., Rueckert, D., Edwards, D., Arichi, T., Smith, S. M., Duff, E., Hajnal, J. V.. 2024-06-13. The developing Human Connectome Project fetal functional MRI release: Methods and data structures. https://doi.org/10.1101/2024.06.13.598863

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