Journal: Journal of Digital Imaging

Article Title: Workflow for Visualization of Neuroimaging Data with an Augmented Reality Device

doi: 10.1007/s10278-017-9991-4

Figure Lengend Snippet: Flow chart to construct 3D objects for import into the AR device for the four discussed examples in the text. Cortical surface: T1-weighted (T1W) high-resolution anatomical images were converted into NIfTI format and imported into Freesurfer where pial surfaces of the right and left hemisphere were extracted in STL format, which could be directly imported into the Paraview software. fMRI BOLD Activation maps: Field echo echo planar images (FE EPI) were acquired during the execution of a bladder voiding task. fMRI activation maps were obtained with the AFNI software with T1W high-resolution anatomical images as references. The 3D IO plugin of ImageJ allowed storing both the cortical surface and the BOLD activation in the VTK format readable by the Paraview software. White matter tracts: based on DTI images acquired for 15 distinct diffusion gradient directions, white matter tracts were reconstructed by the diffusion toolkit that allowed (via the trackvis software) storing these tracts in the VTK file format. Functional Connectivity: FE EPI images and averaged fMRI BOLD activation maps were combined (see text) to create a graph of FC during task performance (bladder voiding) that was visualized in the individual anatomical space of one subject and stored in VTK format. Once displayed in Paraview, 3D STL and VTK Files were exported as scenes (X3D format) and rendered in the Blender software from where they could be imported into the 3D Viewer beta app of the AR device (as FBX files)

Article Snippet: Once displayed in Paraview, 3D STL and VTK Files were exported as scenes (X3D format) and rendered in the Blender software from where they could be imported into the 3D Viewer beta app of the AR device (as FBX files) MRI image data, both anatomical (structural and diffusion) and functional, was retrospectively collected from an IRB-approved human research study involving repetitive bladder voiding [ 17 , 18 ] in DICOM format [ 19 ] (3T Ingenia, Philips). list-behavior=enumerated prefix-word= mark-type=lower-alpha max-label-size=0 Anatomical image data—brain surface High-resolution T1-weighted MRI images of the brain of one subject (axial, 1 mm isotropic resolution) were imported into Freesurfer (version 5.3.0) and separate pial surfaces of the left and the right hemispheres were obtained in the stereolithographic (STL) format.

Techniques: Construct, Software, Activation Assay, Diffusion-based Assay, Functional Assay