Scientific topics: Toxicology
OpenRiskNet/NanoCommons ontology meeting
13 - 14 December 2018
Brussels, BelgiumOpenRiskNet/NanoCommons ontology meeting https://openrisknet.org/events/45/ https://tess.elixir-europe.org/events/openrisknet-nanocommons-ontology-meeting The goal of this meeting is to get a picture of the ongoing ontology activities in the toxicology area, harmonize these efforts and the developed ontologies therein, and extend the existing toxicology ontology to support OpenRiskNet and NanoCommons tasks. Part of this will be the ontological annotation of OpenRiskNet Application Programming Interfaces (APIs) as used on their cloud. Other goals include extension of the ontology with missing terms (if any), potentially write up guidance documents, and annotation of data sets (possible via OpenRiskNet data APIs). 2018-12-13 13:00:00 UTC 2018-12-14 14:00:00 UTC University of Birmingham office in Brussels, Brussels, Belgium University of Birmingham office in Brussels Brussels Belgium Ontology and terminology Toxicology  NanoCommonsOpenRiskNetH2020  workshops_and_courses  risk assessmentnanosafetydata annotationservice descriptions
Demonstration on data curation and creation of pre-reasoned datasets in the OpenRiskNet framework
18 March 2019Demonstration on data curation and creation of pre-reasoned datasets in the OpenRiskNet framework https://openrisknet.org/events/58/ https://tess.elixir-europe.org/events/demonstration-on-data-curation-and-creation-of-pre-reasoned-datasets-in-the-openrisknet-framework In the process of utilising the analysis tools available in the OpenRiskNet e-infrastructure, data needs to be accessed from different sources and various formats. In this webinar we will use examples to introduce attendees to the OpenRiskNet data handling and curation process. This will include methods for data access, upload, and extraction for further downstream analysis. Some specific examples we will be exploring include: * A workflow using the text mining capability for data extraction from a public database; * Demonstration of extraction of data from a public database for a specific endpoint (e.g. drug induced liver injury) and combine with other data (e.g. omics data) to get a better grouping for target prediction. 2019-03-18 16:00:00 UTC 2019-03-18 17:00:00 UTC OpenRiskNet Data submission, annotation, and curation Toxicology  Registration: https://attendee.gotowebinar.com/register/1969650133692000781   workshops_and_courses  
Use of Nextflow tool for toxicogenomics-based prediction and mechanism identification in OpenRiskNet e-infrastructure
27 May 2019Use of Nextflow tool for toxicogenomics-based prediction and mechanism identification in OpenRiskNet e-infrastructure https://openrisknet.org/events/65/ https://tess.elixir-europe.org/events/use-of-nextflow-tool-for-toxicogenomics-based-prediction-and-mechanism-identification-in-openrisknet-e-infrastructure Predictive toxicology and risk assessments increasingly rely on Big Data analyses for more informed decision making. Toxicogenomics uses transcriptomic readouts to predict the characteristics of compounds based on the gene-expression profiling of cells in response to exposure. These large genomic analysis place new computational demands on researchers with the handling of datasets, the combining of tools and the reproducible deployment of an analysis presenting significant challenges. This webinar highlights how these challenges can be overcome using the open source workflow management tool Nextflow within the OpenRiskNet e-infrastructure. Using the toxicogenomics example, we will show how a workflow can be created, deployed and shared across Kubernetes-based environments. 2019-05-27 16:00:00 UTC 2019-05-27 17:00:00 UTC OpenRiskNet Toxicology    workshops_and_courses first_come_first_served toxicogenomics
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