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Understanding the structures of biological macromolecules is highly important as they are closely associated with cellular functionalities. Comprehending the precise organization actin filaments is crucial because they form the dynamic…

Deep learning has shown promising results in medical image analysis, however, the lack of very large annotated datasets confines its full potential. Although transfer learning with ImageNet pre-trained classification models can alleviate…

Ultrasound (US) is a critical modality for diagnosing liver fibrosis. Unfortunately, assessment is very subjective, motivating automated approaches. We introduce a principled deep convolutional neural network (CNN) workflow that…

To assist researchers to identify Environmental Microorganisms (EMs) effectively, a Multiscale CNN-CRF (MSCC) framework for the EM image segmentation is proposed in this paper. There are two parts in this framework: The first is a novel…

Foundation models like ChatGPT and Sora that are trained on a huge scale of data have made a revolutionary social impact. However, it is extremely challenging for sensors in many different fields to collect similar scales of natural images…

Ultrathin multimode fibers (MMFs) promise endoscopes with hair-scale diameters for accessing sub-millimeter anatomy, but in MMF far-field imaging the required small collection aperture drives speckle-dominated measurements that rapidly…

Assessment of cardiovascular disease (CVD) with cine magnetic resonance imaging (MRI) has been used to non-invasively evaluate detailed cardiac structure and function. Accurate segmentation of cardiac structures from cine MRI is a crucial…

Transfer learning is widely used for training machine learning models. Here, we study the role of transfer learning for training fully convolutional networks (FCNs) for medical image segmentation. Our experiments show that although transfer…

Convolutional neural networks (CNNs) for biomedical image analysis are often of very large size, resulting in high memory requirement and high latency of operations. Searching for an acceptable compressed representation of the base CNN for…

This study explores the use of Federated Learning (FL) for stenosis detection in coronary angiography images (CA). Two heterogeneous datasets from two institutions were considered: Dataset 1 includes 1219 images from 200 patients, which we…

This research embarked on a comparative exploration of the holistic segmentation capabilities of Convolutional Neural Networks (CNNs) in both 2D and 3D formats, focusing on cystic fibrosis (CF) lesions. The study utilized data from two CF…

On the medical images, many of the tissues/lesions may be ambiguous. That is why the medical segmentation is typically annotated by a group of clinical experts to mitigate the personal bias. However, this clinical routine also brings new…

X-ray computed microtomography ({\mu}-CT) is a non-destructive technique that can generate high-resolution 3D images of the internal anatomy of medical and biological samples. These images enable clinicians to examine internal anatomy and…

Evaluating the mechanical response of fiber-reinforced composites can be extremely time consuming and expensive. Machine learning (ML) techniques offer a means for faster predictions via models trained on existing input-output pairs and…

Visualizing disease-induced scarring and fibrosis in the heart on cardiac magnetic resonance (CMR) imaging with contrast enhancement (LGE) is paramount in characterizing disease progression and quantifying pathophysiological substrates of…

Network analysis is rapidly becoming a standard tool for studying functional magnetic resonance imaging (fMRI) data. In this framework, different brain areas are mapped to the nodes of a network, whose links depict functional dependencies…

MR images of fetuses allow clinicians to detect brain abnormalities in an early stage of development. The cornerstone of volumetric and morphologic analysis in fetal MRI is segmentation of the fetal brain into different tissue classes.…

Spine image segmentation is crucial for clinical diagnosis and treatment of spine diseases. The complex structure of the spine and the high morphological similarity between individual vertebrae and adjacent intervertebral discs make…

To prepare for identifying the composition of nanowire-fiber mixtures in Scanning Electron Microscope (SEM) images, we optimize the performance of image classification between nanowires, fibers and tips due to their geometric similarities.…

Nowadays U-net-like FCNs predominate various biomedical image segmentation applications and attain promising performance, largely due to their elegant architectures, e.g., symmetric contracting and expansive paths as well as lateral…