Third Party Tools

AOP-helpFinder

The AOP-helpFinder V3 webserver is an advanced tool for the comprehensive analysis of scientific literature from the PubMed database, supporting the development and refinement of AOPs. In this latest version, improved text mining algorithms combined with graph-based approaches and prioritization strategies enable the automated identification, scoring, and network-based visualization of relationships between stressors and MIEs/KEs/AOs, and of KERs. Stressors and events can be selected from the AOP-Wiki database or defined by users, facilitating both the exploration of existing knowledge and the construction of new AOPs. 

Wiki Kaptis

Wiki 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.

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.

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​ or contact Marvin Martens (marvin.martens@maastrichtuniversity.nl)

AOP-DB

The 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 Mapper

The AOP Mapper is an interactive web tool designed to facilitate the exploration and analysis of Adverse Outcome Pathways (AOPs). It enables users to visualize and query relationships among all AOP-Wiki object types, including Molecular Initiating Events (MIEs), Key Events (KEs), Key Event Relationships (KERs), Key Event Components (biological objects, processes and actions), and Adverse Outcomes (AOs). In addition, it incorporates associated data such as chemicals, stressors, and assays—where assays are extracted during AI-driven preprocessing from the measurement methods described in Key Events.

Link to AOP Mapper: https://aop.adma.ai