NCBO Annotator

Description: A Web service that tags free text with ontology concepts. NCBO uses these Web services to annotate resources in the NCBO Resource Index to create an ontology index of these resources. This Web service can be accessed through BioPortal or used directly in your software. Currently, the annotation workflow is based on syntactic concept recognition (using concept names and synonyms) and on a set of semantic expansion algorithms that leverage the semantics in ontologies (e.g., is_a relations). Our service methodology leverages ontologies to create annotations of raw text and returns them using semantic web standards.

Institution: Stanford University

People: NCBO

Home Page: http://www.bioontology.org/annotator-service

Ontologies Used

PhenX Terms
Not Reviewed Yet
NCI Thesaurus
Not Reviewed Yet
Infectious Disease Ontology
Not Reviewed Yet
Mouse pathology
Not Reviewed Yet
Foundational Model of Anatomy
Not Reviewed Yet
NanoParticle Ontology
Not Reviewed Yet
RadLex
Not Reviewed Yet
Ontology of Glucose Metabolism Disorder
Not Reviewed Yet
Mosquito insecticide resistance
Not Reviewed Yet
Cell type
Not Reviewed Yet
Cereal plant gross anatomy
Not Reviewed Yet
Yeast phenotypes
Not Reviewed Yet
Evidence codes
Not Reviewed Yet
Basic Vertebrate Anatomy
Not Reviewed Yet
Amino Acid
Not Reviewed Yet
Pathway ontology
Not Reviewed Yet
Microarray and Gene Expression Data Ontology
Not Reviewed Yet
Mammalian phenotype
Not Reviewed Yet
Neuroscience Information Framework Standard ontology
Not Reviewed Yet
Pathogen transmission
Not Reviewed Yet
Human disease ontology
Not Reviewed Yet
International Classification of Diseases
Not Reviewed Yet
Rat Strain Ontology
Not Reviewed Yet
Ontology of Geographical Region
Not Reviewed Yet
Subcellular Anatomy Ontology (SAO)
Not Reviewed Yet
Dictyostelium discoideum anatomy
Not Reviewed Yet
Situation-Based Access Control
Not Reviewed Yet
Protein-protein interaction
Not Reviewed Yet
Mass spectrometry
Not Reviewed Yet
Proteomics data and process provenance
Not Reviewed Yet
Ascomycete phenotype ontology
Not Reviewed Yet
MaHCO - An MHC Ontology
Not Reviewed Yet
Vaccine Ontology
Not Reviewed Yet
Comparative Data Analysis Ontology
Not Reviewed Yet
Cardiac Electrophysiology Ontology
Not Reviewed Yet
Skin Physiology Ontology
Not Reviewed Yet
FlyBase Controlled Vocabulary
Not Reviewed Yet
Spider Ontology
Not Reviewed Yet
Ontology for disease genetic investigation
Not Reviewed Yet
Units of measurement
Not Reviewed Yet
Epoch Clinical Trial Ontologies
Not Reviewed Yet
Cancer Research and Management ACGT Master Ontology
Not Reviewed Yet
Multiple alignment
Not Reviewed Yet
Lipid Ontology
Not Reviewed Yet
Galen
Not Reviewed Yet
Environment Ontology
Not Reviewed Yet
C. elegans phenotype
Not Reviewed Yet
Fungal gross anatomy
Not Reviewed Yet
NCBI organismal classification
Not Reviewed Yet
Plant Structure Development Stage
Not Reviewed Yet
BioPortal Metadata
Not Reviewed Yet
Habronattus courtship
Not Reviewed Yet
Amphibian gross anatomy
Not Reviewed Yet
Drosophila gross anatomy
Not Reviewed Yet
Mouse gross anatomy and development
Not Reviewed Yet
Event (INOH pathway ontology)
Not Reviewed Yet
Medaka fish anatomy and development
Not Reviewed Yet
DermLex: The Dermatology Lexicon
Not Reviewed Yet
eVOC (Expressed Sequence Annotation for Humans)
Not Reviewed Yet
OBO relationship types
Not Reviewed Yet
Xenopus anatomy and development
Not Reviewed Yet
Symptom Ontology
Not Reviewed Yet
Physico-chemical methods and properties
Not Reviewed Yet
Human developmental anatomy, timed version
Not Reviewed Yet
Suggested Ontology for Pharmacogenomics
Not Reviewed Yet
Protein Ontology [by Sidhu]
Not Reviewed Yet
Computer-based Patient Record Ontology
Not Reviewed Yet
Proteomics Pipeline Infrastructure for CPTAC
Not Reviewed Yet
Sequence types and features
Not Reviewed Yet
Plant environmental conditions
Not Reviewed Yet
Ontology for Parasite LifeCycle
Not Reviewed Yet
Cereal Plant Development
Not Reviewed Yet
Maize gross anatomy
Not Reviewed Yet
C. elegans gross anatomy
Not Reviewed Yet
Teleost taxonomy
Not Reviewed Yet
Phenotypic quality
Not Reviewed Yet
Gene Regulation Ontology
Not Reviewed Yet
Plant Trait Ontology
Not Reviewed Yet
Zebrafish anatomy and development
Not Reviewed Yet
Systems Biology
Not Reviewed Yet
Human developmental anatomy, abstract version
Not Reviewed Yet
Biological imaging methods
Not Reviewed Yet
Human Phenotype Ontology
Not Reviewed Yet
Dendritic cell
Not Reviewed Yet
Biomedical Resource Ontology
Not Reviewed Yet
Bleeding History Phenotype
Not Reviewed Yet
Molecule role (INOH Protein name/family name ontology)
Not Reviewed Yet
Mosquito gross anatomy
Not Reviewed Yet
Teleost Anatomy Ontology
Not Reviewed Yet
Ontology of Clinical Research (OCRe)
Not Reviewed Yet
BIRNLex
Not Reviewed Yet
Fly taxonomy
Not Reviewed Yet
Physico-chemical process
Not Reviewed Yet
Common Anatomy Reference Ontology
Not Reviewed Yet
Minimal anatomical terminology
Not Reviewed Yet
BRENDA tissue / enzyme source
Not Reviewed Yet
Sample processing and separation techniques
Not Reviewed Yet
Ontology of Physics for Biology
Not Reviewed Yet
Experimental Factor Ontology
Not Reviewed Yet
Ontology for Genetic Interval
Not Reviewed Yet
Bilateria anatomy
Not Reviewed Yet
Plant Anatomy
Not Reviewed Yet
Family Health History Ontology
Not Reviewed Yet
Gene Ontology
Not Reviewed Yet
C. elegans development
Not Reviewed Yet
Pseudogene
Not Reviewed Yet
Loggerhead nesting
Not Reviewed Yet
Chemical entities of biological interest
Not Reviewed Yet
Spatial Ontology
Not Reviewed Yet
BioTop
Not Reviewed Yet
African Traditional Medicine
Not Reviewed Yet
SNP-Ontology
Not Reviewed Yet
Ontology for Biomedical Investigations
Not Reviewed Yet
Tick gross anatomy
Not Reviewed Yet
Mouse adult gross anatomy
Not Reviewed Yet
PRotein Ontology
Not Reviewed Yet
Protein modification
Not Reviewed Yet
Electrocardiography Ontology
Not Reviewed Yet
NMR-instrument specific component of metabolomics investigations
Not Reviewed Yet
Drosophila development
Not Reviewed Yet
Cell Behavior Ontology
Not Reviewed Yet