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Our understanding of the structure of the brain and its relationships with human traits is largely determined by how we represent the structural connectome. Standard practice divides the brain into regions of interest (ROIs) and represents…
We propose two strategies to improve the quality of tractography results computed from diffusion weighted magnetic resonance imaging (DW-MRI) data. Both methods are based on the same PDE framework, defined in the coupled space of positions…
White Matter Tract Segmentation is imperative for studying brain structural connectivity, neurological disorders and neurosurgery. This task remains complex, as tracts differ among themselves, across subjects and conditions, yet have…
We present Transfer Orthology Networks (TRON), a novel neural network architecture designed for cross-species transfer learning. TRON leverages orthologous relationships, represented as a bipartite graph between species, to guide knowledge…
Doctors and researchers routinely use diffusion tensor imaging (DTI) and tractography to visualize the fibrous structure of tissues in the human body. This paper explores the connection of these techniques to the painterly rendering of…
The Corticospinal Tract (CST) is a part of pyramidal tract (PT), and it can innervate the voluntary movement of skeletal muscle through spinal interneurons (the 4th layer of the Rexed gray board layers), and anterior horn motorneurons…
In this study, we present a method of pattern mining based on network theory that enables the identification of protein structures or complexes from synthetic volume densities, without the knowledge of predefined templates or human biases…
We propose a geometric deep-learning-based framework, TractGeoNet, for performing regression using diffusion magnetic resonance imaging (dMRI) tractography and associated pointwise tissue microstructure measurements. By employing a point…
The extraction of fibers from dMRI data typically produces a large number of fibers, it is common to group fibers into bundles. To this end, many specialized distance measures, such as MCP, have been used for fiber similarity. However,…
The shape of the brain's white matter connections is relatively unexplored in diffusion MRI tractography analysis. While it is known that tract shape varies in populations and across the human lifespan, it is unknown if the variability in…
Diffusion-weighted magnetic resonance imaging allows for reconstruction of models for structural connectivity in the brain, such as fiber orientation distribution functions (ODFs) that describe the distribution, direction, and volume of…
Here we show a method of directing the edges of the connectomes, prepared from diffusion tensor imaging (DTI) datasets from the human brain. Before the present work, no high-definition directed braingraphs (or connectomes) were published,…
Vessel tracing by modeling vascular structures in 3D medical images with centerlines and radii can provide useful information for vascular health. Existing algorithms have been developed but there are certain persistent problems such as…
One of the main issues of the current tractography methods is their high false-positive rate. Tractogram filtering is an option to remove false-positive streamlines from tractography data in a post-processing step. In this paper, we train a…
Diffusion Tensor Imaging (DTI) allows estimating the position, orientation and dimension of bundles of nerve pathways. This non-invasive imaging technique takes advantage of the diffusion of water molecules and determines the diffusion…
In this paper, we propose a novel deep learning architecture combining stacked Bi-directional LSTM and LSTMs with the Siamese network architecture for segmentation of brain fibers, obtained from tractography data, into anatomically…
Despite the recent progress in genome sequencing and assembly, many of the currently available assembled genomes come in a draft form. Such draft genomes consist of a large number of genomic fragments (scaffolds), whose order and/or…
Understanding the complex myocardial architecture is critical for diagnosing and treating heart disease. However, existing methods often struggle to accurately capture this intricate structure from Diffusion Tensor Imaging (DTI) data,…
Shape measures have emerged as promising descriptors of white matter tractography, offering complementary insights into anatomical variability and associations with cognitive and clinical phenotypes. However, conventional methods for…
We introduce a convenient framework for constructing and analyzing orthogonal Thom spectra arising from virtual vector bundles. This framework enables us to set up a theory of orientations and graded Thom isomorphisms with good…