相关论文: MiShape: 3D Shape Modelling of Mitochondria in Mic…
The objective of this paper is to significantly reduce the manual workload required from medical professionals in complex 3D segmentation tasks that cannot be yet fully automated. For instance, in radiotherapy planning, organs at risk must…
Microscopes are vital pieces of equipment in much of biological research and medical diagnostics. However, access to a microscope can represent a bottleneck in research, especially in lower-income countries. `Smart' computer controlled…
Light microscopy allows observing cellular features and objects with sub-micrometer resolution. As such, light microscopy has been playing a fundamental role in the life sciences for more than a hundred years. Fueled by the availability of…
Although cell shape can reflect the mechanical and biochemical properties of the cell and its environment, quantification of 3D cell shapes within 3D tissues remains difficult, typically requiring digital reconstruction from a stack of 2D…
Label-free 3D brightfield microscopy offers a fast and noninvasive way to visualize cellular morphology, yet robust volumetric segmentation still typically depends on fluorescence or heavy post-processing. We address this gap by introducing…
Mitochondrial diseases are currently untreatable due to our limited understanding of their pathology. We study the expression of various mitochondrial proteins in skeletal myofibres (SM) in order to discover processes involved in…
Deformable shape modeling approaches that describe objects in terms of their medial axis geometry (e.g., m-reps [Pizer et al., 2003]) yield rich geometrical features that can be useful for analyzing the shape of sheet-like biological…
In recent years, the usefulness of 3D shape estimation is being realized in microscopic or close-range imaging, as the 3D information can further be used in various applications. Due to limited depth of field at such small distances, the…
Accurate RNA structure modeling remains difficult because RNA backbones are highly flexible, non-canonical interactions are prevalent, and experimentally determined 3D structures are comparatively scarce. We introduce \emph{RiboSphere}, a…
Existing online 3D shape repositories contain thousands of 3D models but lack photorealistic appearance. We present an approach to automatically assign high-quality, realistic appearance models to large scale 3D shape collections. The key…
We propose ReMiDi, a novel method for inferring neuronal microstructure as arbitrary 3D meshes using a differentiable diffusion Magnetic Resonance Imaging (dMRI) simulator. We first implemented in PyTorch a differentiable dMRI simulator…
Volumetric biomedical microscopy has the potential to increase the diagnostic information extracted from clinical tissue specimens and improve the diagnostic accuracy of both human pathologists and computational pathology models.…
We introduce OpenShape, a method for learning multi-modal joint representations of text, image, and point clouds. We adopt the commonly used multi-modal contrastive learning framework for representation alignment, but with a specific focus…
Mid-infrared photothermal microscopy is a new chemical imaging technology in which a visible beam senses the photothermal effect induced by a pulsed infrared laser. This technology provides infrared spectroscopic information at sub-micron…
Microglia are important cells in the brain, and their shape can tell us a lot about brain health. In this project, I test three different tools for finding the center points of microglia in 3D microscope images. The tools include ilastik,…
The fusion of rigorous physical laws with flexible data-driven learning represents a new frontier in scientific simulation, yet bridging the gap between physical interpretability and computational efficiency remains a grand challenge. In…
Morphological reconstruction of dendritic spines from fluorescent microscopy is a critical open problem in neuro-image analysis. Existing segmentation tools are ill-equipped to handle thin spines with long, poorly illuminated neck…
Many surface cues support three-dimensional shape perception, but people can sometimes still see shape when these features are missing -- in extreme cases, even when an object is completely occluded, as when covered with a draped cloth. We…
One of the essential tasks in connectomics is the morphology analysis of neurons and organelles like mitochondria to shed light on their biological properties. However, these biological objects often have tangled parts or complex branching…
Due to image blurring image deconvolution is often used for studying biological structures in fluorescence microscopy. Fluorescence microscopy image volumes inherently suffer from intensity inhomogeneity, blur, and are corrupted by various…