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This dissertation is devoted to provide advanced nonconvex nonsmooth variational models of (Magnetic Resonance Image) MRI reconstruction, efficient learnable image reconstruction algorithms and parameter training algorithms that improve the…
We introduce a novel approach for predicting the progression of adolescent idiopathic scoliosis from 3D spine models reconstructed from biplanar X-ray images. Recent progress in machine learning have allowed to improve classification and…
Developing automated and semi-automated solutions for reconstructing wiring diagrams of the brain from electron micrographs is important for advancing the field of connectomics. While the ultimate goal is to generate a graph of neuron…
Proton imaging is a powerful technique for imaging electromagnetic fields within an experimental volume, in which spatial variations in proton fluence are a result of deflections to proton trajectories due to interaction with the fields.…
Magnetic resonance imaging (MRI) reconstruction is a fundamental task aimed at recovering high-quality images from undersampled or low-quality MRI data. This process enhances diagnostic accuracy and optimizes clinical applications. In…
Feature-preserving mesh denoising has received noticeable attention in visual media, with the aim of recovering high-fidelity, clean mesh shapes from the ones that are contaminated by noise. Existing denoising methods often design smaller…
Reconstruction of the soft tissues in robotic surgery from endoscopic stereo videos is important for many applications such as intra-operative navigation and image-guided robotic surgery automation. Previous works on this task mainly rely…
Reconstructing soft tissues from stereo endoscope videos is an essential prerequisite for many medical applications. Previous methods struggle to produce high-quality geometry and appearance due to their inadequate representations of 3D…
Magnetic resonance imaging (MRI) is one of the noninvasive imaging modalities that can produce high-quality images. However, the scan procedure is relatively slow, which causes patient discomfort and motion artifacts in images. Accelerating…
Fluorescence microscopy images usually show severe anisotropy in axial versus lateral resolution. This hampers downstream processing, i.e. the automatic extraction of quantitative biological data. While deconvolution methods and other…
Scanning X-ray nanodiffraction microscopy is a powerful technique for spatially resolving nanoscale structural morphologies by diffraction contrast. One of the critical challenges in experimental nanodiffraction data analysis is posed by…
Image reconstruction from undersampled k-space data has been playing an important role for fast MRI. Recently, deep learning has demonstrated tremendous success in various fields and also shown potential to significantly speed up MR…
This paper introduces a new shape-based image reconstruction technique applicable to a large class of imaging problems formulated in a variational sense. Given a collection of shape priors (a shape dictionary), we define our problem as…
This paper presents a novel method, named geodesic deformable networks (GDN), that for the first time enables the learning of geodesic flows of deformation fields derived from images. In particular, the capability of our proposed GDN being…
Neuropathological analyses benefit from spatially precise volumetric reconstructions that enhance anatomical delineation and improve morphometric accuracy. Our prior work has shown the feasibility of reconstructing 3D brain volumes from 2D…
Purpose: To develop a deep learning-based Bayesian inference for MRI reconstruction. Methods: We modeled the MRI reconstruction problem with Bayes's theorem, following the recently proposed PixelCNN++ method. The image reconstruction from…
Imaging through optical multimode fibers (MMFs) has the potential to enable hair-thin endoscopes that reduce the invasiveness of imaging deep inside tissues and organs. Current approaches predominantly require active wavefront shaping and…
Deformable image registration and regression are important tasks in medical image analysis. However, they are computationally expensive, especially when analyzing large-scale datasets that contain thousands of images. Hence, cluster…
Patient scans from MRI often suffer from noise, which hampers the diagnostic capability of such images. As a method to mitigate such artifact, denoising is largely studied both within the medical imaging community and beyond the community…
Reconstruction of endoscopic scenes is an important asset for various medical applications, from post-surgery analysis to educational training. Neural rendering has recently shown promising results in endoscopic reconstruction with…