Third Party Tools

AOP-DB

AOP-DB

AOP-DBThe Adverse Outcome Pathway Database (AOP-DB) is an online database (https://aopdb.epa.gov/) that combines different data types (AOP, gene, chemical, disease, and pathway) to identify the impacts of chemicals on human health and the environment. EPA developed the AOP-DB to better characterize adverse outcomes of toxicological interest that are relevant to human health and the environment. More info

AOP-DB RDF and sparql endpoint hosted by University of Maastrict: https://github.com/BiGCAT-UM/AOP-DB-RDF

AOP-helpFinder

AOP-helpFinder

The AOP-helpFinder V1 webserver is a tool for comprehensive analysis of the literature from the PubMed database to support the development of AOPs. In the current version, text mining approaches combined to graph theory allow automatic identification of published linkage between stressors and key events. Stressors and events can be the ones already present in the AOP-wiki database, or others defined by the users that are developing a new AOP.

AOP-Wiki RDF

AOP-Wiki RDF

If you want to access to the semantic web version (RDF) of the AOP-Wiki, you can go to the SNORQL interface (https://aopwiki.rdf.bigcat-bioinformatics.org/), where SPARQL queries can be used to extract AOP-Wiki content in a rapid and flexible manner. The interface is also loaded with example queries that can be used and adapted for everyone's needs. Furthermore, the resource can be accessed through coding environments for automated extraction of information, and permanent links can be generated for easy sharing of specific SPARQL queries. 

For more information, check out this paper:  https://doi.org/10.1089/aivt.2021.0010‚Äč or contact Marvin Martens (marvin.martens@maastrichtuniversity.nl)

Biovista Vizit

Biovista Vizit

Biovista Vizit is a visual exploration tool that enables researchers to view, explore and create interactive networks of AOPs and KEs of interest and their components such as Stressor, Object, Process, Action and Taxonomic Applicability. 

Networks are enhanced with PubMed based interconnections of genes, pathways, diseases, tissues and other biomedical terms enabling hypothesis generation and evidence discovery. Users can save the created networks and share their insights with their peers.

Wiki Kaptis

Wiki Kaptis

Wiki Kaptis logoWiki Kaptis is the result of an ongoing collaboration between Lhasa Limited and the AOP-Wiki. Wiki Kaptis - developed by Lhasa - displays AOPs which have been curated within AOP-Wiki.

Wiki Kaptis offers improved AOP knowledge visualisation and interrogation, achieved through AOP network functionality. An AOP network is displayed from a Key Event (KE) of interest - allowing you to easily understand the wider impact of a KE, outside of a single AOP.