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Light sheet fluorescence microscopy (LSM) enables high-resolution, three-dimensional (3D) imaging of biological specimens, providing rich volumetric data for studying cellular organization, pathology, and vascular networks. However, the…

Image stacks provide invaluable 3D information in various biological and pathological imaging applications. Fourier ptychographic microscopy (FPM) enables reconstructing high-resolution, wide field-of-view image stacks without z-stack…

Improving the detailed understanding of the underlying properties and functions of biomolecules has recently attracted growing interest, enabled by the possibility of real-space imaging of single, intact macromolecules using Scanning…

Most existing methods for depth estimation from a focal stack of images employ convolutional neural networks (CNNs) using 2D or 3D convolutions over a fixed set of images. However, their effectiveness is constrained by the local properties…

Single-beam scanning microscopy (SBSM) is one of the most robust strategies for commercial optical systems. Although structured illumination combined with Fourier-domain spatial spectrum fusion can enhance SBSM resolution beyond the…

Deep-learning-based approaches to depth estimation are rapidly advancing, offering superior performance over existing methods. To estimate the depth in real-world scenarios, depth estimation models require the robustness of various noise…

Deep Learning (DL) based methods for magnetic resonance (MR) image reconstruction have been shown to produce superior performance in recent years. However, these methods either only leverage under-sampled data or require a paired…

In recent years, analyzing task-based fMRI (tfMRI) data has become an essential tool for understanding brain function and networks. However, due to the sheer size of tfMRI data, its intrinsic complex structure, and lack of ground truth of…

Deep neural networks have demonstrated very promising performance on accurate segmentation of challenging organs (e.g., pancreas) in abdominal CT and MRI scans. The current deep learning approaches conduct pancreas segmentation by…

Distant metastases (DM) refer to the dissemination of tumors, usually, beyond the organ where the tumor originated. They are the leading cause of death in patients with soft-tissue sarcomas (STSs). Positron emission tomography-computed…

Multimodal medical image fusion plays an instrumental role in several areas of medical image processing, particularly in disease recognition and tumor detection. Traditional fusion methods tend to process each modality independently before…

Volumetric imaging of samples using fluorescence microscopy plays an important role in various fields including physical, medical and life sciences. Here we report a deep learning-based volumetric image inference framework that uses 2D…

Functional MRI (fMRI) is commonly used for interpreting neural activities across the brain. Numerous accelerated fMRI techniques aim to provide improved spatiotemporal resolutions. Among these, simultaneous multi-slice (SMS) imaging has…

Medical image segmentation is a fundamental task for medical image analysis and surgical planning. In recent years, UNet-based networks have prevailed in the field of medical image segmentation. However, convolution-neural networks (CNNs)…

Portable, low-field Magnetic Resonance Imaging (MRI) scanners are increasingly being deployed in clinical settings. However, key barriers to their widespread use include low signal-to-noise ratio (SNR), generally low image quality, and long…

Curriculum learning is a bio-inspired training technique that is widely adopted to machine learning for improved optimization and better training of neural networks regarding the convergence rate or obtained accuracy. The main concept in…

The use of fluorescent molecules to create long sequences of low-density, diffraction-limited images enables highly-precise molecule localization. However, this methodology requires lengthy imaging times, which limits the ability to view…

Deep learning based models, generally, require a large number of samples for appropriate training, a requirement that is difficult to satisfy in the medical field. This issue can usually be avoided with a proper initialization of the…

Deep convolutional neural networks (CNNs) for image denoising can effectively exploit rich hierarchical features and have achieved great success. However, many deep CNN-based denoising models equally utilize the hierarchical features of…

In this work we train a neural network to identify impurities in the experimental images obtained by the scanning tunneling microscope measurements. The neural network is first trained with large number of simulated data and then the…