Evaluating domain ontologies: clarification, classification, and challenges
M McDaniel, VC Storey - ACM Computing Surveys (CSUR), 2019 - dl.acm.org
The number of applications being developed that require access to knowledge about the
real world has increased rapidly over the past two decades. Domain ontologies, which …
real world has increased rapidly over the past two decades. Domain ontologies, which …
[HTML][HTML] Ontology mapping for semantically enabled applications
Highlights•Ontology mapping enables data analytics through interoperability and
integration.•Mapping between ontologies expands coverage across large domains such as …
integration.•Mapping between ontologies expands coverage across large domains such as …
Enhancing phenotype recognition in clinical notes using large language models: PhenoBCBERT and PhenoGPT
To enhance phenotype recognition in clinical notes of genetic diseases, we developed two
models—PhenoBCBERT and PhenoGPT—for expanding the vocabularies of Human …
models—PhenoBCBERT and PhenoGPT—for expanding the vocabularies of Human …
GenomicKB: a knowledge graph for the human genome
F Feng, F Tang, Y Gao, D Zhu, T Li, S Yang… - Nucleic Acids …, 2023 - academic.oup.com
Abstract Genomic Knowledgebase (GenomicKB) is a graph database for researchers to
explore and investigate human genome, epigenome, transcriptome, and 4D nucleome with …
explore and investigate human genome, epigenome, transcriptome, and 4D nucleome with …
[HTML][HTML] AgroPortal: A vocabulary and ontology repository for agronomy
Many vocabularies and ontologies are produced to represent and annotate agronomic data.
However, those ontologies are spread out, in different formats, of different size, with different …
However, those ontologies are spread out, in different formats, of different size, with different …
KGen: a knowledge graph generator from biomedical scientific literature
Background Knowledge is often produced from data generated in scientific investigations.
An ever-growing number of scientific studies in several domains result into a massive …
An ever-growing number of scientific studies in several domains result into a massive …
Biomedical relation extraction with knowledge graph-based recommendations
Biomedical Relation Extraction (RE) systems identify and classify relations between
biomedical entities to enhance our knowledge of biological and medical processes. Most …
biomedical entities to enhance our knowledge of biological and medical processes. Most …
Ontology engineering: Current state, challenges, and future directions
T Tudorache - Semantic Web, 2020 - content.iospress.com
In the last decade, ontologies have become widely adopted in a variety of fields ranging
from biomedicine, to finance, engineering, law, and cultural heritage. The ontology …
from biomedicine, to finance, engineering, law, and cultural heritage. The ontology …
Ontology repositories and semantic artefact catalogues with the ontoPortal technology
C Jonquet, J Graybeal, S Bouazzouni, M Dorf… - International Semantic …, 2023 - Springer
There is an explosion in the number of ontologies and semantic artefacts being produced in
science. This paper discusses the need for common platforms to receive, host, serve, align …
science. This paper discusses the need for common platforms to receive, host, serve, align …
Knowledge-augmented Graph Machine Learning for Drug Discovery: From Precision to Interpretability
Conventional Artificial Intelligence models are heavily limited in handling complex
biomedical structures (such as 2D or 3D protein and molecule structures) and providing …
biomedical structures (such as 2D or 3D protein and molecule structures) and providing …