Book chapter
Efficient and Extensible Workflow: Reliable Whole Brain Segmentation for Large-Scale, Multi-center Longitudinal Human MRI Analysis Using High Performance/Throughput Computing Resources
Clinical Image-Based Procedures. Translational Research in Medical Imaging, pp.54-61
Lecture Notes in Computer Science, Springer International Publishing
03/23/2016
DOI: 10.1007/978-3-319-31808-0_7
Abstract
Advances in medical image applications have led to mounting expectations in regard to their impact on neuroscience studies. In light of this fact, a comprehensive application is needed to move neuroimaging data into clinical research discoveries in a way that maximizes collected data utilization and minimizes the development costs. We introduce BRAINS AutoWorkup, a Nipype based open source MRI analysis application distributed with BRAINSTools suite (http://brainsia.github.io/BRAINSTools/). This work describes the use of efficient and extensible automated brain MRI analysis workflow for large-scale multi-center longitudinal studies. We first explain benefits of our extensible workflow development using Nipype, including fast integration and validation of recently introduced tools with heterogeneous software infrastructures. Based on this workflow development, we also discuss our recent advancements to the workflow for reliable and accurate analysis of multi-center longitudinal data. In addition to Nipype providing a unified workflow, its support for High Performance Computing (HPC) resources leads to a further increased time efficiency of our workflow. We show our success on a few selected large-scale studies, and discuss future direction of this translation research in medical imaging applications.
Details
- Title: Subtitle
- Efficient and Extensible Workflow: Reliable Whole Brain Segmentation for Large-Scale, Multi-center Longitudinal Human MRI Analysis Using High Performance/Throughput Computing Resources
- Creators
- Regina EY Kim - Department of Psychiatry, University of Iowa, Iowa City, USAPeg Nopoulos - Neurology, University of Iowa, Iowa City, USAJane Paulsen - Neurology, University of Iowa, Iowa City, USAHans Johnson - Electrical Computer Engineering, University of Iowa, Iowa City, USA
- Resource Type
- Book chapter
- Publication Details
- Clinical Image-Based Procedures. Translational Research in Medical Imaging, pp.54-61
- Publisher
- Springer International Publishing
- Series
- Lecture Notes in Computer Science
- DOI
- 10.1007/978-3-319-31808-0_7
- eISSN
- 1611-3349
- ISSN
- 0302-9743
- Language
- English
- Date published
- 03/23/2016
- Academic Unit
- Electrical and Computer Engineering; Roy J. Carver Department of Biomedical Engineering; Psychological and Brain Sciences; Neurology; Iowa Neuroscience Institute; Stead Family Department of Pediatrics; Psychiatry
- Record Identifier
- 9984070764302771
Metrics
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