OpenRiskNet Services

Integrated
Generate, store and share predictive statistical and machine learning models
Jaqpot is a user-friendly web-based e-infrastructure containing many data analysis and modelling microservices integrated under harmonised APIs. The Jaqpot infrastructure allows the user to build applications that preprocess data, compute ...

Provided by:
National Technical University of Athens
Type:
Service, Data mining tool, Model, Model generation tool, Trained model, Processing tool, Analysis tool
Applicability domain:
Computational modelling, Predictive toxicology
Topic:
Predictive modelling, Biokinetics
For developers
For end-users
Integrated
Toxicity prediction
Lazar (Lazy Structure-Activity Relationships ) takes a chemical structure as input and provides predictions for a variety of toxic properties. Lazar uses an automated and reproducible read across procedure to calculate ...

Provided by:
in silico toxicology gmbh, Johannes Gutenberg Univertity
Type:
Trained model, Application, Service
Applicability domain:
Toxicology, Predictive toxicology
Topic:
Structure-activity relationship (SAR / QSAR)
Biological area:
Acute toxicity, Blood brain barrier, Carcinogenicity, NOAEL/LOAEL, Mutagenicity
For developers
For end-users
Generate, store and share predictive statistical and machine learning models
Jaqpot is a user-friendly web-based e-infrastructure containing many data analysis and modelling microservices integrated under harmonised APIs. Jaqpot GUI is a user interface that allows the end-user to use most ...

Provided by:
National Technical University of Athens
Type:
Visualisation tool, Application, Data mining tool, Model, Model generation tool, Trained model, Processing tool, Analysis tool, Workflow
Applicability domain:
Computational modelling, Predictive toxicology
Topic:
Predictive modelling
For end-users
In progress
Information retrieval system for semantic searches in large text collections
SCAIView is a knowledge discovery software for the life sciences. It facilitates­ the rapid identification of aggregate­d information from large text sources. Knowledge Discovery and Semantic Search Documents are ...

Provided by:
Fraunhofer Gesellschaft
Type:
Application, Service, Software
Applicability domain:
Bioinformatics
Topic:
Identifier mapping, Information extraction
For end-users
In progress
Service to run Nextflow pipelines
The command line service provides the necessary environment to run any Nextflow pipeline. The basic command for using the service after logging in is: nextflow run <pipeline_name> For a collection of ...</pipeline_name>

Provided by:
Centre for Genomic Regulation (CRG)
Type:
Service, Workflow, Software
Applicability domain:
Bioinformatics
For developers
In progress
Provides identifier mapping for metabolites and genes/proteins from Homo sapiens, Mus musculus and Rattus norvegicus.

Provided by:
Maastricht University
Type:
Database / data source
Topic:
Identifier mapping
For developers
For end-users
In progress
Provides identifier mapping for metabolites and genes/proteins from a large variety of species

Provided by:
Maastricht University
Type:
Database / data source
Topic:
Identifier mapping
For developers
For end-users
In progress
Collection of toxicological data sources exposed via OpenTox
Three of the most popular toxicologic open data sources are already publically available: the EPA's in vitro ToxCast/Tox21 database, the EPA's in vivo ToxRefDB database and the ...

Provided by:
Douglas Connect
Type:
Database / data source, Application
Applicability domain:
Computational modelling, Toxicology, Bioinformatics, Predictive toxicology
Topic:
Risk assessment, Chemical properties
Biological area:
NOAEL/LOAEL, Omics, Acute toxicity
For end-users
In progress
Combining site-of-metabolism and reactivity for (P450) site-of-metabolism prediction. Includes structure-based predictor (from OpenRiskNet partner VU) and third-party (University of Copenhagen) reactivity predictor (SMARTCyp).

Provided by:
Vrije Universiteit Amsterdam
Type:
Service
Applicability domain:
Predictive toxicology
Topic:
Structure-activity relationship (SAR / QSAR)
For developers
For end-users
Integrated
Conformal prediction of log D based on dataset of ACD Log D from ChEMBL

Provided by:
Uppsala University
Type:
Trained model
Topic:
Structure-activity relationship (SAR / QSAR)
For developers
For end-users
Integrated

Provided by:
Johannes Gutenberg University Mainz
Type:
Model generation tool
For developers
For end-users
Integrated
Interactive computing and workflows sharing
A collection of Jupyter notebooks developed for and with the OpenRiskNet VRE. Project Jupyter is a non-profit, open-source project, born out of the IPython Project in 2014 as it evolved ...

Provided by:
Project Jupyter
Type:
Helper tool, Visualisation tool, Processing tool, Analysis tool, Software, Workflow
Applicability domain:
Computational modelling, Toxicology, Bioinformatics
For developers
For end-users
Integrated
Site-of-Metabolism and Reaction Type Prediction Service

Provided by:
Uppsala University
Type:
Trained model
For developers
Integrated
Scientific workflows make simple
GUI already available. Working on making squonk services available to other ORN services and on allowing squonk to consume services from other ORN tools/services

Provided by:
Informatics Matters
Type:
Database / data source, Service, Workflow
For developers
For end-users
OpenRiskNet management console
OpenShift console providing the ability to manage and monitor the deployment of an OpenRiskNet VRE. Administrative privileges required to access.

Provided by:
Red Hat
Type:
Service
For system admins
OpenRiskNet Single Sign On
OpenRiskNet Single Sign On (SSO) based on Red Hat SSO product (Keycloak). Provides a single point of user authentication for deployed applications. Administrative privileges required to access.

Provided by:
Red Hat
Type:
Service
For system admins