Related papers: A Fourfold Pathogen Reference Ontology Suite
The International Classification of Diseases (ICD) is an authoritative medical classification system of different diseases and conditions for clinical and management purposes. ICD indexing assigns a subset of ICD codes to a medical record.…
Ontology-based approaches for predicting gene-disease associations include the more classical semantic similarity methods and more recently knowledge graph embeddings. While semantic similarity is typically restricted to hierarchical…
In interactive theorem provers (ITPs), extensible syntax is not only crucial to lower the cognitive burden of manipulating complex mathematical objects, but plays a critical role in developing reusable abstractions in libraries. Most ITPs…
Background: Limited universally-adopted data standards in veterinary medicine hinder data interoperability and therefore integration and comparison; this ultimately impedes the application of existing information-based tools to support…
The ROC ontology for country responses to COVID-19 provides a model for collecting, linking and sharing data on the COVID-19 pandemic. It follows semantic standardization (W3C standards RDF, OWL, SPARQL) for the representation of concepts…
Bio-medical ontologies can contain a large number of concepts. Often many of these concepts are very similar to each other, and similar or identical to concepts found in other bio-medical databases. This presents both a challenge and…
COVID-19 has resulted in a public health global crisis. The pandemic control necessitates epidemic models that capture the trends and impacts on infectious individuals. Many exciting models can implement this but they lack practical…
The ever-increasing amount of data in biomedical research, and in cancer research in particular, needs to be managed to support efficient data access, exchange and integration. Existing software infrastructures, such caGrid, support access…
Despite the overwhelming quantity of health information that is available online today, finding reliable and trustworthy information is still challenging, even when advanced recommender systems are used. To tackle this challenge and improve…
Motivation: Predicting gene-disease associations (GDAs) is the problem to determine which gene is associated with a disease. GDA prediction can be framed as a ranking problem where genes are ranked for a query disease, based on features…
The transmission dynamics of some infectious diseases is related to the contact structure between individuals in a network. We used five algorithms to generate contact networks with different topological structure but with the same…
We consider the spread of infectious disease through contact networks of Configuration Model type. We assume that the disease spreads through contacts and infected individuals recover into an immune state. We discuss a number of existing…
Recent work has attempted to use whole-genome sequence data from pathogens to reconstruct the transmission trees linking infectors and infectees in outbreaks. However, transmission trees from one outbreak do not generalize to future…
Information retrieval from distributed heterogeneous data sources remains a challenging issue. As the number of data sources increases more intelligent retrieval techniques, focusing on information content and semantics, are required.…
Poor data quality has become a pervasive issue due to the increasing complexity and size of modern datasets. Constraint based data cleaning techniques rely on integrity constraints as a benchmark to identify and correct errors. Data values…
Artificial Intelligence (AI) and infectious diseases prediction have recently experienced a common development and advancement. Machine learning (ML) apparition, along with deep learning (DL) emergence, extended many approaches against…
International Classification of Diseases (ICD) is a globally recognized coding system that records diagnostic events during each patient encounter, providing a standardized data foundation for various clinical tasks. However, the irregular…
The COVID-19 pandemic has highlighted the need for innovative solutions to monitor and control the spread of infectious diseases. With the potential for future pandemics and the risk of outbreaks particularly in academic institutions, there…
The use of computational ontologies is well-established in the field of Medical Informatics. The topic of Social Determinants of Health (SDoH) has also received extensive attention. Work at the intersection of ontologies and SDoH has been…
Infectious diseases occur when pathogens from other individuals or animals infect a person, resulting in harm to both individuals and society as a whole. The outbreak of such diseases can pose a significant threat to human health. However,…