Services

The NanoCommons e-infrastructure aims to integrate and further develop existing state-of-the-art tools and to develop those that are needed to fill in the experimental, computational and beyond needs of the nanosafety community. The services are covering several areas, like data storage and online accessibility, data visualisation and predictive toxicity, data processing and analysis or experimental workflow design & implementation.

Experimental Workflows Design & Implementation
Experimental Workflows Design & Implementation
Data Processing & Analysis
Data Processing & Analysis
Data Visualisation & Predictive Toxicity
Data Visualisation & Predictive Toxicity
Data Storage & Online Accessibility
Data Storage & Online Accessibility
NovaMechanics Ltd. is offering a complete Knime workflow, which allows the users to download data from the NanoCommons KnowledgeBase and use accordingly to their modelling workflows. While the workflow is …

Provided by:
NovaMechanics Ltd.
Type:
Modelling tool
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Bioinformatics, Exposure assessment, Nanoinformatics, Safe by design
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Information extraction, Predictive modelling, Omics data analysis, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology
Enalos APIs, KNIME, NanoCommons Knowledgebase
This KNIME nodes give access to NanoCommons Knowledgebase nanomaterials datasets through Enalos APIs. Physicochemical, toxicological and omics characterisation data such as DLS, Zeta, TEM size % of viable cells, IC50, …

Provided by:
NovaMechanic Ltd
Type:
Data curation tool, Modelling tool, Data warehouse, Knowledge base
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Bioinformatics, Exposure assessment, Nanoinformatics, Safe by design
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Predictive modelling, Toxicology, Ecotoxicology, Computational descriptors for nanomaterials
Rietveld refinement is a technique for the characterisation of crystalline materials, using their neutron and x-ray diffraction patterns (diffractograms). The analysis of the height, width and position of the measured …

Provided by:
University of Birmingham
Type:
Modelling tool
Topic:
Read-across, Information extraction, Identifier mapping, Physicochemical characterisation of nanomaterials
SmartNanoTox modelling tools, http://www.smartnanotox.eu/?page_id=143, were developed by H2020 project SmartNanoTox for the prediction of the biological activity of NMs. The tools include NM and biomolecule coarse-graining using Python scripts, evaluation …

Provided by:
University College Dublin
Type:
Modelling tool
Applicability domain:
Risk characterisation
Topic:
(Quantitative) structure-activity relationship (SAR / QSAR), Information extraction, Predictive modelling, Physicochemical characterisation of nanomaterials
The European Union FP-7 project GUIDEnano has developed a web-based guidance tool for users to apply the most appropriate risk assessment and mitigation strategy for NM-enabled products throughout their life …

Provided by:
LEITAT Technological Center
Type:
Modelling tool
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Exposure assessment
Topic:
Information extraction, Kinetics / biokinetics, Predictive modelling, Toxicology, Ecotoxicology
Making the most impact with your research, it helps if you had your research data management (RDM) in place. Within the context of the RDM you work on making data …

Provided by:
Maastricht University
Type:
Semantic annotation tool
Applicability domain:
Ontologies
Topic:
Read-across, Information extraction, Identifier mapping
The NanoCommons Knowledge Base is based on the BioXM TM Knowledge Management Environment, a software developed over the last 15 years by Biomax Informatics AG and applied in multiple collaborative …

Provided by:
Biomax Informatics AG
Type:
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Bioinformatics, Exposure assessment
Topic:
Omics data analysis
NanoXtract is a unique online tool for the calculation of image descriptors based on Transmission Electron Microscopy (TEM) images of NMs that was developed and made available through the Enalos …

Provided by:
NovaMechanics Ltd.
Type:
Image analysis tool
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Exposure assessment
Topic:
Information extraction, Identifier mapping, Physicochemical characterisation of nanomaterials
Novel toxicological methods need to look at realistic exposure levels during first-pass hazard identification studies to minimise the time and materials required for testing and rapidly identify materials of high …

Provided by:
Oregon State University
Type:
Protocols and methods repository, Data warehouse, Knowledge base
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Bioinformatics, Exposure assessment
Topic:
Read-across, Protein and small molecule corona analysis, Kinetics / biokinetics, Omics data analysis, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology
Derive descriptors
NanoImage, part of the Jaqpot Platform, offers tools for analysis of electron microscopy images, allowing the user to derive descriptors for the materials directly from the images, offering distinct advantage …

Provided by:
National Technical University of Athens
Type:
Image analysis tool
Applicability domain:
Hazard assessment, Risk assessment, Risk characterisation, Exposure assessment
Topic:
Read-across, Information extraction, Physicochemical characterisation of nanomaterials
The NanoCommons Knowledge Base is based on the BioXM TM Knowledge Management Environment, a software developed over the last 15 years by Biomax Informatics AG and applied in multiple collaborative …

Provided by:
Biomax Informatics AG
Type:
Protocols and methods repository, Experimental workflow, Data curation tool, Data warehouse, Knowledge base
Applicability domain:
Ontologies, Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Protein and small molecule corona analysis, Information extraction, Identifier mapping, Kinetics / biokinetics, Predictive modelling, Omics data analysis, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology
LEITAT is offering guidance on nano-related experimental workflows, which may include site visits, either to established facilities (as a reference in terms of layout, equipment needs, workflow, etc.) or to …

Provided by:
LEITAT Technological Center
Type:
Experimental workflow
Applicability domain:
Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, Information extraction, Toxicology, Ecotoxicology
A new predictive model has been developed within NanoCommons project with the aid of Enalos Cloud Platform to support the safety-by-design concept. More specifically a read across predictive model was …

Provided by:
NovaMechanics Ltd.
Type:
Image analysis tool
Applicability domain:
Risk characterisation
Topic:
Read-across, Information extraction, Predictive modelling, Physicochemical characterisation of nanomaterials
The Environmental Nanoscience Group (ENG) of the University of Birmingham (UoB) has long experience on one of the key pillars of nanosafety research, which is the full physicochemical characterisation of …

Provided by:
University of Birmingham
Type:
Electronic Laboratory Notebook (ELN), Protocols and methods repository, Experimental workflow
Applicability domain:
Risk assessment, Risk characterisation, Hazard assessment, Exposure assessment
Topic:
Read-across, Information extraction, Identifier mapping, Kinetics / biokinetics, Physicochemical characterisation of nanomaterials
Enalos Cloud Platform, developed by NovaMechanics Ltd, is an online, freely available cheminformatics and nanoinformatics cloud platform, that hosts predictive models released as web services, which aim to address the …

Provided by:
NovaMechanics Ltd.
Type:
Image analysis tool, Modelling tool
Applicability domain:
Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Information extraction, Identifier mapping, Kinetics / biokinetics, Predictive modelling, Omics data analysis

Provided by:
University of Birmingham
Type:
Electronic Laboratory Notebook (ELN), Protocols and methods repository, Experimental workflow, Data curation tool, Semantic annotation tool
Applicability domain:
Ontologies, Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Protein and small molecule corona analysis, Information extraction, Identifier mapping, Kinetics / biokinetics, Omics data analysis, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology

Provided by:
Centre for Ecology and Hydrology
Type:
Protocols and methods repository, Experimental workflow
Applicability domain:
Risk assessment, Risk characterisation, Hazard assessment, Exposure assessment
Topic:
Read-across, Information extraction, Kinetics / biokinetics, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology
UoB will work closely with the interested parties to semantically annotate raw, processed and/or published data using established ontologies, but focusing on the widely accepted eNanoMapper (eNM) ontology. UoB will …

Provided by:
University of Birmingham
Type:
Data curation tool, Semantic annotation tool, Data warehouse, Knowledge base
Applicability domain:
Ontologies, Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Protein and small molecule corona analysis, Information extraction, Identifier mapping, Kinetics / biokinetics, Predictive modelling, Omics data analysis, Physicochemical characterisation of nanomaterials, Toxicology, Ecotoxicology
The University of Birmingham (UoB) is implementing data management processes covering the entire data lifecycle, but mainly by moving the data curation process to the data generators. UoB understands that …

Provided by:
University of Birmingham
Type:
Data curation tool, Semantic annotation tool
Applicability domain:
Ontologies, Hazard assessment, Exposure assessment, Risk assessment, Risk characterisation, Bioinformatics
Topic:
Read-across, Information extraction, Identifier mapping, Toxicology, Ecotoxicology
toxFlow is a web-application developed for enrichment analysis of omics data and toxicity prediction. A sequential analysis workflow is suggested where users can filter omics data using enrichment scores and …

Provided by:
National Technical University of Athens
Type:
Modelling tool
Applicability domain:
Risk assessment, Bioinformatics, Hazard assessment
Topic:
Read-across, Omics data analysis
An ontology-based semantic query and text-mining tool.
Komenti uses semantic technology to enable knowledge-led analysis of text. It contains a query tool that allows for Description Logic querying for groups of nanomaterials concepts. Using these labels, it …

Provided by:
University of Birmingham
Type:
Semantic annotation tool
Applicability domain:
Ontologies
Topic:
Information extraction
AberOWL ontology repository and semantic search engine
AberOWL is an ontology repository that enables description logic querying of ontology concepts via GUI and API. In this way, it provides a framework basis for semantically enabled analysis of …

Provided by:
University of Birmingham
Type:
Knowledge base
Applicability domain:
Ontologies
Topic:
Information extraction
Train, deploy and share predictive statistical and machine learning models
Jaqpot 5 is a user-friendly web-based e-infrastructure that allows model developers to deploy their predictive models and share them through the web. The Jaqpot 5 GUI directs the model developers …

Provided by:
National Technical University of Athens
Type:
Modelling tool
Applicability domain:
Risk assessment, Hazard assessment, Exposure assessment
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Information extraction, Kinetics / biokinetics, Predictive modelling
Nanoinformatics Enalos Nanomaterials Safe-by-Design

Provided by:
NovaMechanics Ltd
Type:
Modelling tool
Applicability domain:
Risk assessment, Risk characterisation, Hazard assessment
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Predictive modelling, Toxicology
Harmonised data management and integration
Flexible and customised data management and sharing solutions are in demand in many projects being publicly funded or deployed in-house at a specific institution. Edelweiss Connect offers data management components …

Provided by:
Edelweiss Connect GmbH
Type:
Data warehouse
Applicability domain:
Risk assessment, Bioinformatics
Generate, store and share predictive statistical and machine learning models
Jaqpot 4 is a user-friendly web-based e-infrastructure containing many data analysis and modelling microservices integrated under harmonised APIs. Jaqpot GUI 4 is a user interface that allows the end-user to …

Provided by:
National Technical University of Athens
Type:
Experimental workflow, Modelling tool
Applicability domain:
Risk assessment
Topic:
Read-across, (Quantitative) structure-activity relationship (SAR / QSAR), Predictive modelling
Collection and sharing of nanomaterials physicochemical characterisation protocols, metadata and data
The knowledge infrastructure (KI) supports the activities related to data collection and method optimisation related to the physicochemical characterisation of nanomaterials and aims to further disseminate this knowledge to the …

Provided by:
Edelweiss Connect GmbH
Type:
Protocols and methods repository, Data warehouse
Applicability domain:
Risk assessment
Topic:
Physicochemical characterisation of nanomaterials