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The developing human connectome project: A minimal processing pipeline for neonatal cortical surface reconstruction.

Authors
  • Makropoulos, Antonios1
  • Robinson, Emma C2
  • Schuh, Andreas1
  • Wright, Robert3
  • Fitzgibbon, Sean4
  • Bozek, Jelena5
  • Counsell, Serena J3
  • Steinweg, Johannes3
  • Vecchiato, Katy3
  • Passerat-Palmbach, Jonathan1
  • Lenz, Gregor1
  • Mortari, Filippo1
  • Tenev, Tencho1
  • Duff, Eugene P4
  • Bastiani, Matteo4
  • Cordero-Grande, Lucilio3
  • Hughes, Emer3
  • Tusor, Nora3
  • Tournier, Jacques-Donald3
  • Hutter, Jana3
  • And 11 more
  • 1 Biomedical Image Analysis Group, Department of Computing, Imperial College London, London, United Kingdom. , (United Kingdom)
  • 2 Biomedical Image Analysis Group, Department of Computing, Imperial College London, London, United Kingdom; Centre for the Developing Brain, School of Biomedical Engineering & Imaging Sciences, King's College London, London, United Kingdom. Electronic address: [email protected] , (United Kingdom)
  • 3 Centre for the Developing Brain, School of Biomedical Engineering & Imaging Sciences, King's College London, London, United Kingdom. , (United Kingdom)
  • 4 Wellcome Centre for Integrative Neuroimaging, FMRIB Centre, Nuffield Department of Clinical Neurosciences, University of Oxford, Oxford, United Kingdom. , (United Kingdom)
  • 5 Faculty of Electrical Engineering and Computing, University of Zagreb, Zagreb, Croatia. , (Croatia)
Type
Published Article
Journal
NeuroImage
Publisher
Elsevier
Publication Date
Jun 01, 2018
Volume
173
Pages
88–112
Identifiers
DOI: 10.1016/j.neuroimage.2018.01.054
PMID: 29409960
Source
Medline
Keywords
Language
English
License
Unknown

Abstract

The Developing Human Connectome Project (dHCP) seeks to create the first 4-dimensional connectome of early life. Understanding this connectome in detail may provide insights into normal as well as abnormal patterns of brain development. Following established best practices adopted by the WU-MINN Human Connectome Project (HCP), and pioneered by FreeSurfer, the project utilises cortical surface-based processing pipelines. In this paper, we propose a fully automated processing pipeline for the structural Magnetic Resonance Imaging (MRI) of the developing neonatal brain. This proposed pipeline consists of a refined framework for cortical and sub-cortical volume segmentation, cortical surface extraction, and cortical surface inflation, which has been specifically designed to address considerable differences between adult and neonatal brains, as imaged using MRI. Using the proposed pipeline our results demonstrate that images collected from 465 subjects ranging from 28 to 45 weeks post-menstrual age (PMA) can be processed fully automatically; generating cortical surface models that are topologically correct, and correspond well with manual evaluations of tissue boundaries in 85% of cases. Results improve on state-of-the-art neonatal tissue segmentation models and significant errors were found in only 2% of cases, where these corresponded to subjects with high motion. Downstream, these surfaces will enhance comparisons of functional and diffusion MRI datasets, supporting the modelling of emerging patterns of brain connectivity. Copyright © 2018 Elsevier Inc. All rights reserved.

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