Table 1

Currently available data sources in aTag format.

Data source

Description

Source of entities used for tagging

SIDER

Drug side-effect data. Size: 100,000 RDF statements.

DBpedia, ChEBI

PDSP Ki Database

Receptor-ligand interactions quantified by Ki value, emphasis on data about psychoactive substances.

SenseLab, ChEBI

PubMed Conclusion sections

Conclusion sections extracted from PubMed abstracts, annotated with Medical Subject Headings. Size: 1,8 million RDF statements.

SKOS version of Medical Subject Headings (MeSH)

Science Commons Text Annotation Service

Webservice that annotates sentences in PubMed abstracts with aTags

Gene Ontology, ChEBI, some smaller OBO ontologies, Uniprot and NCBI Taxonomy

aTag Pastebin

User-generated content, mostly curated from scientific texts on the web, created with the aTag bookmarklet. Contains curated statements in diverse domains such as pharmacology and neuroscience.

DBpedia

ChEBI: Chemical Entities of Biological Interest. MeSH: Medical Subjct Headings. PDSP: Psychoactive Drug Screening Programme. SKOS: Simple Knowledge Organisation System.

Samwald and Stenzhorn Journal of Biomedical Semantics 2010 1(Suppl 1):S5   doi:10.1186/2041-1480-1-S1-S5