Related papers: CRISP: A Framework for Cryo-EM Image Segmentation …
Cryogenic Electron Tomography (CryoET) is a useful imaging technology in structural biology that is hindered by its need for manual annotations, especially in particle picking. Recent works have endeavored to remedy this issue with few-shot…
Object segmentation and structure localization are important steps in automated image analysis pipelines for microscopy images. We present a convolution neural network (CNN) based deep learning architecture for segmentation of objects in…
State-of-the-art methods for semantic segmentation of images involve computationally intensive neural network architectures. Most of these methods are not adaptable to high-resolution image segmentation due to memory and other computational…
Semantic segmentation is a fundamental task in multimedia processing, which can be used for analyzing, understanding, editing contents of images and videos, among others. To accelerate the analysis of multimedia data, existing segmentation…
In the field of integrated circuit manufacturing, the detection and classification of nanoscale wafer defects are critical for subsequent root cause analysis and yield enhancement. The complex background patterns observed in scanning…
We present a fully modular and scalable software pipeline for processing electron microscope (EM) images of brain slices into 3D visualization of individual neurons and demonstrate an end-to-end segmentation of a large EM volume using a…
Cryo-electron microscopy (cryo-EM) enables the atomic-resolution visualization of biomolecules; however, modern direct detectors generate data volumes that far exceed the available storage and transfer bandwidth, thereby constraining…
Foreground components in the Cosmic Microwave Background (CMB) are sparse in a needlet representation, due to their specific morphological features (anisotropy, non-Gaussianity). This leads to the possibility of applying needlet…
We revisit the topic of common lines between projection images in single particle cryo-electron microscopy (cryo-EM). We derive a novel low-rank constraint on a certain $2n \times n$ matrix storing properly-scaled basis vectors for the…
The cryo-electron microscope (cryo-EM) is increasingly popular these years. It helps to uncover the biological structures and functions of macromolecules. In this paper, we address image denoising problem in cryo-EM. Denoising the cryo-EM…
The fully connected conditional random field (CRF) with Gaussian pairwise potentials has proven popular and effective for multi-class semantic segmentation. While the energy of a dense CRF can be minimized accurately using a linear…
Accurate characterization of carbon nanotube morphologies in electron microscopy images is vital for exposure assessment and toxicological studies, yet current workflows rely on slow, subjective manual segmentation. This work presents a…
Determining the three-dimensional structure of proteins and protein complexes at atomic resolution is a fundamental task in structural biology. Over the last decade, remarkable progress has been made using "single particle" cryo-electron…
When it comes to clinical images, automatic segmentation has a wide variety of applications and a considerable diversity of input domains, such as different types of Magnetic Resonance Images (MRIs) and Computerized Tomography (CT) scans.…
We present LS-CRF, a new method for very efficient large-scale training of Conditional Random Fields (CRFs). It is inspired by existing closed-form expressions for the maximum likelihood parameters of a generative graphical model with tree…
Automated surface segmentation is important and challenging in many medical image analysis applications. Recent deep learning based methods have been developed for various object segmentation tasks. Most of them are a classification based…
In single-particle cryo-electron microscopy (cryo-EM), the efficient determination of orientation parameters for 2D projection images poses a significant challenge yet is crucial for reconstructing 3D structures. This task is complicated by…
Single-particle cryo-Electron Microscopy (EM) has become a popular technique for determining the structure of challenging biomolecules that are inaccessible to other technologies. Recent advances in automation, both in data collection and…
Achieving high-quality semantic segmentation predictions using only image-level labels enables a new level of real-world applicability. Although state-of-the-art networks deliver reliable predictions, the amount of handcrafted pixel-wise…
Cryo-electron microscopy (cryo-EM) is an experimental technique for protein structure determination that images an ensemble of macromolecules in near-physiological contexts. While recent advances enable the reconstruction of dynamic…