Search
Search Results
-
The protein-protein interaction ontology: for better representing and capturing the biological context of protein interaction
BackgroundWith the rapid increase in the amount of Protein-Protein Interaction (PPI) data, the establishment of an event-centered PPI ontology that...
-
CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata
BackgroundPublic biomedical data repositories often provide web-based interfaces to collect experimental metadata. However, these interfaces...
-
SIFR annotator: ontology-based semantic annotation of French biomedical text and clinical notes
BackgroundDespite a wide adoption of English in science, a significant amount of biomedical data are produced in other languages, such as French. Yet...
-
Development of the International Classification of Diseases Ontology (ICDO) and its application for COVID-19 diagnostic data analysis
BackgroundThe 10th and 9th revisions of the International Statistical Classification of Diseases and Related Health Problems (ICD10 and ICD9) have...
-
Conceiving an application ontology to model patient human papillomavirus vaccine counseling for dialogue management
BackgroundIn the United States and parts of the world, the human papillomavirus vaccine uptake is below the prescribed coverage rate for the...
-
The cell line ontology-based representation, integration and analysis of cell lines used in China
BackgroundThe Chinese National Infrastructure of Cell Line stores and distributes cell lines for biomedical research in China. This study aims to...
-
OMeta: an ontology-based, data-driven metadata tracking system
BackgroundThe development of high-throughput sequencing and analysis has accelerated multi-omics studies of thousands of microbial species,...
-
PGxO and PGxLOD: a reconciliation of pharmacogenomic knowledge of various provenances, enabling further comparison
BackgroundPharmacogenomics (PGx) studies how genomic variations impact variations in drug response phenotypes. Knowledge in pharmacogenomics is...
-
Mining data and metadata from the gene expression omnibus
Publicly available gene expression datasets deposited in the Gene Expression Omnibus (GEO) are growing at an accelerating rate. Such datasets hold...
-
Semantic Integration and Enrichment of Heterogeneous Biological Databases
Biological databases are growing at an exponential rate, currently being among the major producers of Big Data, almost on par with commercial...
-
Systematics for types and effects of DNA variations
BackgroundNumerous different types of variations can occur in DNA and have diverse effects and consequences. The Variation Ontology (VariO) was...
-
The Ontology of Biological and Clinical Statistics (OBCS)-based statistical method standardization and meta-analysis of host responses to yellow fever vaccines
BackgroundThe community-based Ontology of Biological and Clinical Statistics (OBCS) represents and standardizes biological and clinical data and...
-
Semantic Technologies and Bio-Ontologies
As information available through data repositories constantly grows, the need for automated mechanisms for linking, querying, and sharing data has...
-
FamPlex: a resource for entity recognition and relationship resolution of human protein families and complexes in biomedical text mining
BackgroundFor automated reading of scientific publications to extract useful information about molecular mechanisms it is critical that genes,...
-
Ontology-based systematic representation and analysis of traditional Chinese drugs against rheumatism
BackgroundRheumatism represents any disease condition marked with inflammation and pain in the joints, muscles, or connective tissues. Many...
-
Endophytic Microbes as a Novel Source for Producing Anticancer Compounds as Multidrug Resistance Modulators
Endophytes are a range of microorganisms which inhabit the plant tissues, establishing an association with their hosts during a period for nearly or...
-
The Interaction Network Ontology-supported modeling and mining of complex interactions represented with multiple keywords in biomedical literature
BackgroundThe Interaction Network Ontology (INO) logically represents biological interactions, pathways, and networks. INO has been demonstrated to...
-
NOBLE – Flexible concept recognition for large-scale biomedical natural language processing
BackgroundNatural language processing (NLP) applications are increasingly important in biomedical data analysis, knowledge engineering, and decision...
-
Representing and querying disease networks using graph databases
BackgroundSystems biology experiments generate large volumes of data of multiple modalities and this information presents a challenge for integration...
