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Deep convolutional neural networks (CNN) proved to be highly accurate to perform anatomical segmentation of medical images. However, some of the most popular CNN architectures for image segmentation still rely on post-processing strategies…
The popular use of histopathology images, such as hematoxylin and eosin (H&E), has proven to be useful in detecting tumors. However, moving such cancer cases forward for treatment requires accurate on the amount of the human epidermal…
Hematoxylin and Eosin (H&E) has been the gold standard in tissue analysis for decades, however, tissue specimens stained in different laboratories vary, often significantly, in appearance. This variation poses a challenge for both…
Zero-day attack detection plays a critical role in mitigating risks, protecting assets, and staying ahead in the evolving threat landscape. This study explores the application of stacked autoencoder (SAE), a type of artificial neural…
This study introduces a compositional autoencoder (CAE) framework designed to disentangle the complex interplay between genotypic and environmental factors in high-dimensional phenotype data to improve trait prediction in plant breeding and…
Object-centric representations form the basis of human perception, and enable us to reason about the world and to systematically generalize to new settings. Currently, most works on unsupervised object discovery focus on slot-based…
Breast cancer classification stands as a pivotal pillar in ensuring timely diagnosis and effective treatment. This study with histopathological images underscores the profound significance of harnessing the synergistic capabilities of…
Accurate and robust prediction of patient's response to drug treatments is critical for developing precision medicine. However, it is often difficult to obtain a sufficient amount of coherent drug response data from patients directly for…
Sparse autoencoders (SAEs) have been applied to large language models and protein language models, but not systematically to electronic health record (EHR) foundation models. We train TopK SAEs on FlatASCEND, a 14.5-million-parameter…
Unsupervised learning can leverage large-scale data sources without the need for annotations. In this context, deep learning-based auto encoders have shown great potential in detecting anomalies in medical images. However, state-of-the-art…
The electrocardiogram (ECG) is an inexpensive and widely available tool for cardiovascular assessment. Despite its standardized format and small file size, the high complexity and inter-individual variability of ECG signals (typically a…
When applying the foreground removal methods to uncover the faint cosmological signal from the epoch of reionization (EoR), the foreground spectra are assumed to be smooth. However, this assumption can be seriously violated in practice…
We introduce Post-DAE, a post-processing method based on denoising autoencoders (DAE) to improve the anatomical plausibility of arbitrary biomedical image segmentation algorithms. Some of the most popular segmentation methods (e.g. based on…
Auto-encoder is a special kind of neural network based on reconstruction. De-noising auto-encoder (DAE) is an improved auto-encoder which is robust to the input by corrupting the original data first and then reconstructing the original…
Due to lack of annotated pathological images, transfer learning has been the predominant approach in the field of digital pathology.Pre-trained neural networks based on ImageNet database are often used to extract "off the shelf" features,…
The field of histology relies heavily on antiquated tissue processing and staining techniques that limit the efficiency of pathologic diagnoses of cancer and other diseases. Current staining and advanced labeling methods are often…
Bioinformatics tools have been developed to interpret gene expression data at the gene set level, and these gene set based analyses improve the biologists' capability to discover functional relevance of their experiment design. While…
Feature extraction techniques are crucial in medical image classification; however, classical feature extractors, in addition to traditional machine learning classifiers, often exhibit significant limitations in providing sufficient…
In recent years, automated Gallbladder Cancer (GBC) detection has gained the attention of researchers. Current state-of-the-art (SOTA) methodologies relying on ultrasound sonography (US) images exhibit limited generalization, emphasizing…
Unsupervised anomaly detection in medical images such as chest radiographs is stepping into the spotlight as it mitigates the scarcity of the labor-intensive and costly expert annotation of anomaly data. However, nearly all existing methods…