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Deep learning has transformed the way large and complex image datasets can be processed, reshaping what is possible in bioimage analysis. As the complexity and size of bioimage data continues to grow, this new analysis paradigm is becoming…

Histopathology refers to the examination by a pathologist of biopsy samples. Histopathology images are captured by a microscope to locate, examine, and classify many diseases, such as different cancer types. They provide a detailed view of…

Learned image compression sits at the intersection of machine learning and image processing. With advances in deep learning, neural network-based compression methods have emerged. In this process, an encoder maps the image to a…

Representation learning has driven major advances in natural image analysis by enabling models to acquire high-level semantic features. In microscopy imaging, however, it remains unclear what current representation learning methods actually…

As interpretability has been pointed out as the obstacle to the adoption of Deep Neural Networks (DNNs), there is an increasing interest in solving a transparency issue to guarantee the impressive performance. In this paper, we demonstrate…

Microscopy image analysis is fundamental for different applications, from diagnosis to synthetic engineering and environmental monitoring. Modern acquisition systems have granted the possibility to acquire an escalating amount of images,…

Content-based medical image retrieval is an important diagnostic tool that improves the explainability of computer-aided diagnosis systems and provides decision making support to healthcare professionals. Medical imaging data, such as…

Deep learning has received extensive research interest in developing new medical image processing algorithms, and deep learning based models have been remarkably successful in a variety of medical imaging tasks to support disease detection…

Protein function is inherently linked to its localization within the cell, and fluorescent microscopy data is an indispensable resource for learning representations of proteins. Despite major developments in molecular representation…

Deep learning methods have recently made notable advances in the tasks of classification and representation learning. These tasks are important for brain imaging and neuroscience discovery, making the methods attractive for porting to a…

Deep learning has been achieving decent performance in computer vision requiring a large volume of images, however, collecting images is expensive and difficult in many scenarios. To alleviate this issue, many image augmentation algorithms…

Mixup~\cite{zhang2017mixup} is a recently proposed method for training deep neural networks where additional samples are generated during training by convexly combining random pairs of images and their associated labels. While simple to…

The trade-off between throughput and image quality is an inherent challenge in microscopy. To improve throughput, compressive imaging under-samples image signals; the images are then computationally reconstructed by solving a regularized…

Understanding what deep learning (DL) models learn is essential for the safe deployment of artificial intelligence (AI) in clinical settings. While previous work has focused on pixel-based explainability methods, less attention has been…

Deep Learning could drastically boost the classification accuracy for Hyperspectral Imaging (HSI). Still, the training on the mostly small hyperspectral data sets is not trivial. Two key challenges are the large channel dimension of the…

Model-driven analysis of biophysical phenomena is gaining increased attention and utility for medical imaging applications. In magnetic resonance imaging (MRI), the availability of well-established models for describing the relations…

Mixup data augmentation approaches have been applied for various tasks of deep learning to improve the generalization ability of deep neural networks. Some existing approaches CutMix, SaliencyMix, etc. randomly replace a patch in one image…

Reliable large-scale cell detection and segmentation is the fundamental first step to understanding biological processes in the brain. The ability to phenotype cells at scale can accelerate preclinical drug evaluation and system-level brain…

This paper presents a comprehensive survey on deep learning-based image watermarking, a technique that entails the invisible embedding and extraction of watermarks within a cover image, aiming to offer a seamless blend of robustness and…

Medical image interpretation using deep learning has shown promise but often requires extensive expert-annotated datasets. To reduce this annotation burden, we develop an Image-Graph Contrastive Learning framework that pairs chest X-rays…