Faculty Bibliography

Quantitative diffusion tensor imaging (DTI) has become the major imaging modality to study properties of white matter and the geometry of fiber tracts of the human brain. Clinical studies mostly focus on regional statistics of fractional anisotropy (FA) and mean diffusivity (MD) derived from tensors. Existing analysis techniques do not sufficiently take into account that the measurements are tensors, and thus require proper interpolation and statistics of tensors, and that regions of interest are fiber tracts with complex spatial geometry. We propose a new framework for quantitative tract-oriented DTI analysis that systematically includes tensor interpolation and averaging, using nonlinear Riemannian symmetric space. A new measure of tensor anisotropy, called geodesic anisotropy (GA) is applied and compared with FA. As a result, tracts of interest are represented by the geometry of the medial spine attributed with tensor statistics (average and variance) calculated within cross-sections. Feasibility of our approach is demonstrated on various fiber tracts of a single data set. A validation study, based on six repeated scans of the same subject, assesses the reproducibility of this new DTI data analysis framework.

Active contour segmentation and its robust implementation using level set methods are well-established theoretical approaches that have been studied thoroughly in the image analysis literature. Despite the existence of these powerful segmentation methods, the needs of clinical research continue to be fulfilled, to a large extent, using slice-by-slice manual tracing. To bridge the gap between methodological advances and clinical routine, we developed an open source application called ITK-SNAP, which is intended to make level set segmentation easily accessible to a wide range of users, including those with little or no mathematical expertise. This paper describes the methods and software engineering philosophy behind this new tool and provides the results of validation experiments performed in the context of an ongoing child autism neuroimaging study. The validation establishes SNAP intrarater and interrater reliability and overlap error statistics for the caudate nucleus and finds that SNAP is a highly reliable and efficient alternative to manual tracing. Analogous results for lateral ventricle segmentation are provided.

In this paper, we present a Bayesian framework for both generating inter-subject large deformation transformations between two multi-modal image sets of the brain and for forming multi-class brain atlases. In this framework, the estimated transformations are generated using maximal information about the underlying neuroanatomy present in each of the different modalities. This modality independent registration framework is achieved by jointly estimating the posterior probabilities associated with the multi-modal image sets and the high-dimensional registration transformations mapping these posteriors. To maximally use the information present in all the modalities for registration, Kullback-Leibler divergence between the estimated posteriors is minimized. Registration results for image sets composed of multi-modal MR images of healthy adult human brains are presented. Atlas formation results are presented for a population of five infant human brains.

BACKGROUND: A number of studies have found brain enlargement in autism, but there is disagreement as to whether this enlargement is limited to early development or continues into adulthood. In this study, cortical gray and white tissue volumes were examined in a sample of adolescents and adults with autism who had demonstrated total brain enlargement in a previous magnetic resonance imaging (MRI) study. METHODS: An automated tissue segmentation program was applied to structural MRI scans to obtain volumes of gray, white, and cerebrospinal fluid (CSF) tissue on a sample of adolescent and adult males ages 13-29 with autism (n = 23) and controls (n = 15). Regional differences for brain lobes and brain hemispheres were also examined. RESULTS: Significant enlargement in gray matter volume was found for the individuals with autism, with a disproportionate increase in left-sided gray matter volume. Lobe volume enlargements were detected for frontal and temporal, but not parietal or occipital lobes, in the subjects with autism. Age and nonverbal IQ effects on tissue volume were also observed. CONCLUSIONS: These findings give evidence for left-lateralized gray tissue enlargement in adolescents and adults with autism, and demonstrate a regional pattern of cortical lobe volumes underlying this effect.

Building of atlases representing average and variability of a population of images or of segmented objects is a key topic in application areas like brain mapping, deformable object segmentation and object classification. Recent developments in image averaging, i.e. constructing an image which is central within the population, focus on unbiased atlas building with nonlinear deformations. Groupwise nonlinear image averaging creates images which appear sharper than linear results. However, volumetric atlases do not explicitely carry a notion of statistics of embedded shapes. This paper compares population-based linear and non-linear image averaging on 3D objects segmented from each image and compares voxel-based versus surface-based representations. Preliminary results suggest improved locality of group average differences for the nonlinear scheme, which might lead to increased significance for hypothesis testing. Results from a clinical MRI study with sets of subcortical structures of children scanned at two years with follow-up at four years are shown.