Structural MR image processing using the brains2 toolbox

Magnotta, Vincent A.; Harris, Greg; Andreasen, Nancy C.; O'Leary, Daniel S.; Yuh, William T. C.; Heckel, Dan

doi:10.1016/s0895-6111(02)00011-3

Cited by 298 publications

(241 citation statements)

References 41 publications

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“…Manual inspection and correction of the output of the neural network tracing was conducted. The BRAINS2 software and procedures have been shown to be of high inter-rater reliability, intrarater reliability, and scan-rescan reproducibility (Andreasen et al, 1996;Harris et al, 1999;Magnotta et al, 1999aMagnotta et al, , 2002. MRI regions of interest for this investigation included the hippocampus and thalamus.…”

Section: Mri Protocolmentioning

confidence: 99%

Thalamic atrophy and cognition in unilateral temporal lobe epilepsy

Seidenberg

Hermann

Pulsipher

et al. 2008

J Inter Neuropsych Soc

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This study examined quantitative magnetic resonance volumes of the thalamus and hippocampus and determined their relationship with cognitive function and clinical seizure characteristics in a sample of 46 unilateral temporal lobe epilepsy (TLE) subjects (20 left and 26 right) and 29 controls. The hippocampus and thalamus exhibited different patterns of volume abnormality, different associations with clinical seizure characteristics, and different patterns of relationship with cognitive measures. Hippocampal volume reduction was primarily ipsilateral to the seizure focus, and thalamic volume reduction was bilateral. Ipsilateral hippocampal volume was significantly correlated with both early neurodevelopmental features (age of seizure onset) and disease characteristics (duration of epilepsy), whereas thalamus integrity was related only to disease variables. Hippocampal volume showed a selective association with verbal memory performance. In contrast, both left and right thalamic volumes were significantly correlated with performance on both memory and nonmemory cognitive domains. These findings underscore the importance of thalamic atrophy in chronic TLE and its potential implications for cognition. (JINS, 2008, 14, 384-393.)

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Section: Mri Protocolmentioning

confidence: 99%

Thalamic atrophy and cognition in unilateral temporal lobe epilepsy

Seidenberg

Hermann

Pulsipher

et al. 2008

J Inter Neuropsych Soc

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“…All images were obtained in the coronal plane. MRI data were identified by scan number to retain blindness and analyzed using Brain Research: Analysis of Images, Networks and Systems software (BRAINS) while applying previously published methodologies of total brain volume (TBV) measurements (Magnotta et al, 2002). The image processing was performed on a SGI workstation (Silicon Graphics Inc., Mountain View, CA) using the BRAINS2 (University of Iowa, Iowa City, IA, USA) software package.…”

Section: Mri Scansmentioning

confidence: 99%

“…The image data was normalized to standard Talairach stereotactic three-dimensional space (Talairach and Tournoux, 1988) by identifying six brain-limiting points (anterior, posterior, superior, inferior, left, and right); the anterior-posterior commissure line specified the x-axis, a vertical line rising from the x-axis through the interhemispheric fissure specified the y-axis, and a transverse orthogonal line with respect to x and y coordinates specified the z-axis. Registration was performed by aligning the T2 and PD images with a resampled T1 image and then resampling the T2 and PD images themselves (Magnotta et al, 2002). After normalization to a standard three-dimensional space, the pixels representing grey matter, white matter, and cerebrospinal fluid were identified using a segmentation algorithm applied to the T1, T2, and PD image sequences as described elsewhere (White et al, 2003).…”

Section: Mri Scansmentioning

confidence: 99%

Volumetric alterations of the orbitofrontal cortex in autism

Girgis

Minshew

Melhem

et al. 2007

Progress in Neuro-Psychopharmacology and Biological Psychiatry

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Recent evidence has implicated the orbitofrontal cortex (OFC) in the pathophysiology of social deficits in autism. An MRI-based morphometric study of the OFC was conducted involving 11 children with autism (age range 8.1-12.7 years) and 18 healthy, age-matched controls (age range 8.9-12.8 years). Decreased grey matter volume in the right lateral OFC in the patient group was found, and correlations were observed between social deficits and white, but not grey, matter structures of the OFC. These findings support the role of OFC in autism and warrant further investigations of this structure using structural and functional methodologies.

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“…MR scans were acquired at the University of Wisconsin Hospital and were processed using a semi-automated software package, i.e., Brain Research: Analysis of Images, Networks, and Systems (BRAINS2) [17]. The T1-weighted images were spatially normalized so that the anterior-posterior axis of the brain was realigned parallel to the anterior commissureposterior commissure (ACPC) line, and the interhemispheric fissure was aligned on the other two axes.…”

Section: Mri Acquisition and Postprocessingmentioning

confidence: 99%

MRI volume loss of subcortical structures in unilateral temporal lobe epilepsy

Pulsipher

Seidenberg

Morton

et al. 2007

Epilepsy & Behavior

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Few studies have examined the relative degree of brain volume loss in both the hippocampi and subcortical structures in unilateral temporal lobe epilepsy (TLE), and their association with clinical seizure correlates. In this study, quantitative MRI volumes were measured in the hippocampus, thalamus, caudate, putamen, and corpus callosum in 48 unilateral TLE patients (26 rights, and 22 lefts) and compared to 29 healthy controls. The ipsilateral hippocampus, corpus callosum, and bilateral thalami showed the greatest volume loss, reflected by large to moderate effect size differences compared to controls. Bilaterally, the putamen showed the next highest volume reduction. The contralateral hippocampus and bilateral caudate nuclei showed the least volume reduction, characterized by small effect sizes. Furthermore, clinical seizure characteristics (e.g, duration of epilepsy) showed different patterns of association with the volume reductions observed across these structures. Findings suggest that distinct neurodevelopmental features may play a role in the volume abnormality observed in these regions.

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Structural MR image processing using the brains2 toolbox

Cited by 298 publications

References 41 publications

Thalamic atrophy and cognition in unilateral temporal lobe epilepsy

Thalamic atrophy and cognition in unilateral temporal lobe epilepsy

Volumetric alterations of the orbitofrontal cortex in autism

MRI volume loss of subcortical structures in unilateral temporal lobe epilepsy

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