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brain mappingIndependent component analysis (ICA) is a widely used technique for investigating functional connectivity (fc) in Functional magnetic resonance imaging (fMRI) data. Masked independent component analysis (mICA), that is, ICA restricted to a defined region of interest, has been shown to detect local functional connectivity (fc) networks in particular brain regions, including the cerebellum, brainstem, posterior cingulate cortex, operculo-insular cortex, hippocampus, and spinal cord. Here, we present the MICA—A toolbox, an open-source GUI toolbox based on FSL command line tools that performs mICA and related analyses in an integrated way. Functions include automated mask generation from atlases, essential preprocessing, mICA-based parcellation, back-reconstruction of whole-brain fc networks from local ones, and reproducibility analysis. Automated slice-wise calculation and cropping are additional functions that reduce computational time and memory requirements for large analyses.

Functional MRI scan images of Jim Gorman's brain. The images were created at Washington University by Dr. Deanna Barch and her team with the same technique that is used on their Human Connectome Project study.DICOM 3D visualization of Jim Gorman's brain was created by stacking DICOM MRI images. NYTCREDIT: Zach Wise for The New York Times– Image: Functional MRI scan images of Jim Gorman’s brain. The images were created at Washington University by Dr. Deanna Barch and her team with the same technique that is used on their Human Connectome Project study.

To validate our toolbox, we tested these different functions on the cerebellum, hippocampus, and brainstem, using resting-state and task-based data from the Human Connectome Project. In the cerebellum, mICA detected six local networks together with their whole-brain counterparts, closely replicating previous results. MICA-based parcellation of the hippocampus showed a longitudinally discrete configuration with greater heterogeneity in the anterior hippocampus, consistent with animal and human literature. Finally, brainstem mICA detected motor and sensory nuclei involved in the motor task of tongue movement, thereby replicating and extending earlier results.

 

 

 

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Functional magnetic resonance imaging (fMRI)

Human Brain Mapping – Wiley Online Library

fMRI data

Scholarly articles for fMRI data PubMed – NCBI

PubMed – NCBI

Scholarly articles for Independent component analysis (ICA), Masked independent component analysis (mICA)

The neural networks of subjectively evaluated …

The functional connectome of cognitive reserve – Marques – 2016

The Statistical Analysis of fMRI Data – Department of Statistics

Visual oddball Test « Press Room | News and Updates | Human …

Scholarly articles for Human Connectome Project

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