Related papers: The IBEX Imaging Knowledge-Base: A Community Resou…

Iterative Bleaching Extends multipleXity (IBEX) is a versatile method for highly multiplexed imaging of diverse tissues. Based on open science principles, we created the IBEX Knowledge-Base, a resource for reagents, protocols and more, to…

High content imaging is needed to catalogue the variety of cellular phenotypes and multi-cellular ecosystems present in metazoan tissues. We recently developed Iterative Bleaching Extends multi-pleXity (IBEX), an iterative immunolabeling…

This paper proposes two new open-source iris recognition algorithms, providing both Python and IREX-compliant C++ implementations to be submitted to the official IREX X program. This work has two primary goals: (a) to conduct the first-ever…

Background, enhancing interoperability of bioinformatics knowledge bases is a high priority requirement to maximize data reusability, and thus increase their utility such as the return on investment for biomedical research. A knowledge base…

Fluorescence Molecular Tomography (FMT) is a widely used non-invasive optical imaging technology in biomedical research. It usually faces significant accuracy challenges in depth reconstruction, and conventional iterative methods struggle…

Multiplexed immunofluorescence provides an unprecedented opportunity for studying specific cell-to-cell and cell microenvironment interactions. We employ graph neural networks to combine features obtained from tissue morphology with…

Research collaborations are continuously emerging catalyzed by online platforms, where people can share their codes, calculations, data and results. These virtual research platforms are innovative, community oriented, flexible and secure as…

Bio image analysis has recently become one keystone of biological research but biologists tend to get lost in a plethora of available software and the way to adjust available tools to their own image analysis problem. We present BIII,…

Three-dimensional generative models increasingly drive structure-based drug discovery, yet it remains constrained by the scarce publicly available protein-ligand complexes. Under such data scarcity, almost all existing pipelines struggle to…

Overexposure frequently occurs in practical scenarios, causing the loss of critical visual information. However, existing infrared and visible fusion methods still exhibit unsatisfactory performance in highly bright regions. To address…

Biomedical research increasingly relies on heterogeneous, high-dimensional datasets, yet effective visualization remains hindered by fragmented code resources, steep programming barriers, and limited domain-specific guidance. Bizard is an…

Biometrics-related research has been accelerated significantly by deep learning technology. However, there are limited open-source resources to help researchers evaluate their deep learning-based biometrics algorithms efficiently,…

Knowledge base construction (KBC) is the process of populating a knowledge base, i.e., a relational database together with inference rules, with information extracted from documents and structured sources. KBC blurs the distinction between…

Standardising the representation of biomedical knowledge among all researchers is an insurmountable task, hindering the effectiveness of many computational methods. To facilitate harmonisation and interoperability despite this fundamental…

Most work on building knowledge bases has focused on collecting entities and facts from as large a collection of documents as possible. We argue for and describe a new paradigm where the focus is on a high-recall extraction over a small…

This article presents our steps to integrate complex and partly unstructured medical data into a clinical research database with subsequent decision support. Our main application is an integrated faceted search tool, accompanied by the…

We consider a joint information extraction (IE) model, solving named entity recognition, coreference resolution and relation extraction jointly over the whole document. In particular, we study how to inject information from a knowledge base…

Populating a database with unstructured information is a long-standing problem in industry and research that encompasses problems of extraction, cleaning, and integration. Recent names used for this problem include dealing with dark data…

Building and maintaining knowledge about specific interface technologies is a challenge. Current solutions include standard file-based document repositories, wikis, and other online tools. However, these solutions are often only available…

Conventional histopathology has long been essential for disease diagnosis, relying on visual inspection of tissue sections. Immunohistochemistry aids in detecting specific biomarkers but is limited by its single-marker approach, restricting…