Optimization of non-linear image registration in AFNI

Yin, Junqi; Anthony, Thomas; Marstrander, Jon; Liu, Yuliang; Burdyshaw, Chad; Horton, Mitchel; Crosby, Lonnie D.; Brook, R. Glenn; Skidmore, Frank

doi:10.1145/2949550.2949564

Cited by 5 publications

(2 citation statements)

References 11 publications

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“…For calculation of ODI and FW maps, we used the NODDI toolbox (version 1.0) [12]. To spatially normalize images to the Illinois Institute of Technology atlas (IIT2) space, we implemented an optimized nonlinear image registration procedure using a modified version of 3dQwarp in AFNI [27].…”

Section: Data Processingmentioning

confidence: 99%

A longitudinal neurite and free water imaging study in patients with a schizophrenia spectrum disorder

Kraguljac

Anthony

Monroe

et al. 2019

Neuropsychopharmacol.

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Diffusion tensor imaging (DTI) studies show widespread white matter abnormalities in schizophrenia, but it is difficult to directly relate these parameters to biological processes. Neurite orientation dispersion and density imaging (NODDI) is geared toward biophysical characterization of white matter microstructure, but only few studies have leveraged this technique to study white matter alterations. We recruited 42 schizophrenia patients (30 antipsychotic-naïve and 12 currently untreated) and 42 matched controls in this prospective study. We assessed the orientation dispersion index (ODI) and extracellular free water (FW) using singleshell DTI data before and after a 6-week trial of risperidone. Longitudinal data were available for 27 patients. Voxelwise analyses showed significantly increased ODI in the posterior limb of the internal capsule in unmedicated patients (242 voxels; x = −24; y = 6; z = 6; p < 0.01; α < 0.04), but no alterations in FW. Whole brain measures did not reveal alterations in ODI but a 6.3% trend-level increase in FW in unmedicated SZ (t = −1.873; p = 0.07). Baseline ODI was negatively correlated with subsequent response to antipsychotic treatment (r = −0.38; p = 0.049). Here, we demonstrated altered fiber complexity in medication-naïve and unmedicated patients with a schizophrenia spectrum illness. Lesser whole brain fiber uniformity was predictive of poor response to treatment, suggesting this measure may be a clinically relevant biomarker. Interestingly, we found no significant changes in NODDI indices after short-term treatment with risperidone. Our data show that biophysical diffusion models have promise for the in vivo evaluation of brain microstructure in this devastating neuropsychiatric syndrome.

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Section: Data Processingmentioning

confidence: 99%

A longitudinal neurite and free water imaging study in patients with a schizophrenia spectrum disorder

Kraguljac

Anthony

Monroe

et al. 2019

Neuropsychopharmacol.

Self Cite

View full text Add to dashboard Cite

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“…To spatially normalize diffusion images to the Illinois Institute of Technology atlas (IIT2) space ( 36), we implemented an optimized non-linear image registration procedure using a modified version of 3dQwarp in AFNI (37). The warping optimization implements an iterative refinement, where an input image is repeatedly processed through an optimizer in smaller and smaller patches, incorporating convergence criteria at each level to better resolve artifacts, with a final patch size of 5× 5× 5 millimeters.…”

Section: Data Processingmentioning

confidence: 99%

Micro- and Macrostructural White Matter Integrity in Never-Treated and Currently Unmedicated Patients With Schizophrenia and Effects of Short-Term Antipsychotic Treatment

Kraguljac

Anthony

Skidmore

et al. 2019

Biological Psychiatry: Cognitive Neuroscience and Neuroimaging

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Background: Schizophrenia is associated with progressive white matter changes, but it is unclear if antipsychotic medications contribute to these. Our objective was to characterize effects of short-term treatment with risperidone on white matter diffusion indices. Methods:We recruited 42 schizophrenia patients (30 never-treated, 12 currently untreated) and 42 matched healthy controls in this prospective case-control neuroimaging study. Patients received a six week trial of risperidone. Using diffusion tensor imaging, we assessed microstructural (fractional anisotropy [FA], mean diffusivity [MD], and radial diffusivity [RD]) and macrostructural (radial fiber trophy) white matter integrity deficits in unmedicated patients compared to controls and change in white matter integrity in patients before and after antipsychotic treatment (mean risperidone dose at endpoint was 3.73+/−1.72mg).

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High Performance/Throughput Computing Workflow for a Neuro-Imaging Application: Provenance and Approaches

Anthony

Robinson

Marstrander

et al. 2017

Big Data and Visual Analytics

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Optimization of non-linear image registration in AFNI

Cited by 5 publications

References 11 publications

A longitudinal neurite and free water imaging study in patients with a schizophrenia spectrum disorder

A longitudinal neurite and free water imaging study in patients with a schizophrenia spectrum disorder

Micro- and Macrostructural White Matter Integrity in Never-Treated and Currently Unmedicated Patients With Schizophrenia and Effects of Short-Term Antipsychotic Treatment

High Performance/Throughput Computing Workflow for a Neuro-Imaging Application: Provenance and Approaches

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