Fetal brain MRI

During acqusition of fetal brain magnetic resonance images (MRI), fetus is moving freely. The fetal brain MRI is therefore acquired as stacks of 2D slices, which can be acquired under one second. These slices are not aligned with respect to each other and can contain motion artefacts.

We developed a method for high-resolution reconstruction of fetal brain volumetric MRI. The method aligns the slices, excludes the motion-corrupted slices and matches the intensities in slices to remove inconsistencies.

The method is suitable for reconstruction of thick-slice clinical data as well as thin-slice data acquired with optimised sequences. Thin slice data and good approximation of point-spread function with which the data were acquired results in images with very high signal-to-noise ratio.


Top row: acquired data. Bottom row: reconstructed data.

The reconstruction software is now available for download here.

Relevant publications:

Reconstruction of fetal brain MRI with intensity matching and complete outlier removal. M Kuklisova-Murgasova, G Quaghebeur, MA Rutherford, JV Hajnal, JA Schanbel. Medical Image Analysis 16(8), 2012. link (open access). 

Unified framework for superresolution reconstruction of 3D fetal brain MR images from 2D slices with intensity correction and outlier rejection. M Kuklisova-Murgasova, G Quaghebeur, JV Hajnal, JA Schnabel. MICCAI Workshop on Image Analysis of Human Brain Development, Toronto, 2011.

3D Reconstruction of Fetal Brain MR Imaging. M Kuklisova-Murgasova, G Quaghebeur, JA Schnabel. ASNR 50th Annual Meeting, New York, 2012. 

Towards 3D registration of fetal brain MRI and ultrasound. M. Kuklisova-Murgasova, Gerardine Quaghebeur, Joseph V. Hajnal, J. Alison Noble, Julia A. Schnabel. ISBI, Barcelona, 2012. 
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