780,037 Works

Deliverable Report D4.1 Analysis and Modelling Specifications

Georgia Tsiliki Philip Doganis
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for the development of “safe by design” Engineered Nanomaterials (ENMs). Work Package 4 will develop computational infrastructure capable to analyse and extract knowledge out of diverse types of ENM-related theoretical descriptors, experimental data and associated metadata, including provenance of experimental data and experimental conditions and protocols. This deliverable report defines the technical specifications of the eNanoMapper analysis and modelling...

Deliverable Report D5.6 User Application for Conformance to Reporting and Curation Standards

Jiakang Chang Linda Rieswijk
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safe by design” engineered nanomaterial development. Within the nanosafety domain several projects have initiated the development of standards for data reporting and curation. With this deliverable we show how the ontology can be used to test the data completeness within the eNanoMapper database, according to these approved standards, which is tested with the use of SPARQL queries. To...

Deliverable Report D5.4 User application for importing NanoSafety Cluster data

Nikolay Kochev Nina Jeliazkova
The aim of this work is to analyze and choose technical options to implement application and user interfaces for the import of available data from various EU Nanosafety Cluster (EU NSC) projects. Applications are subjected to integrated testing (Task 5.2) and, depending on licenses, data are released for user testing and evaluation (Task 1.4). eNanoMapper has been in contact with various NanoSafety Cluster projects for importing data. Most of this data is expected to be...

Deliverable Report D5.3 User applications for importing NanoWiki data

Barry Hardy E.L. Willighagen
The eNanoMapper Community Outreach focuses on the implementation of a number of use cases defined by the community. One common use case is the import into the eNanoMapper database of data from another database. This use case therefore consists of exporting data from one database in some format, writing an importer that can handle that format and reading it into the knowledge base, with minimal or no information loss. The goal of the work completed...

Deliverable Report D4.6 Tools for generating QMRF and QPRF reports

C. Chomenidis G. Drakakis
Scientific reports carry significant importance for the straightforward and effective transfer of knowledge, results and ideas. Good practice dictates that reports should be well-structured and concise. This deliverable describes the reporting services for models, predictions and validation tasks that have been integrated within the eNanoMapper (eNM) modelling infrastructure. Validation services have been added to the Jaqpot Quattro (JQ) modelling platform and the nano-lazar read-across framework developed within WP4 to support eNM modelling activities. Moreover, we...

Deliverable Report D4.5 Design of experiments and inter-laboratory testing facilities

C. Chomenidis G. Drakakis
This deliverable report describes extensions of the tools available in eNanoMapper’s Jaqpot Quattro (JQ) modelling infrastructure, by integrating capabilities for performing optimal experimental design and interlaboratory proficiency testing. In the first case, researchers may optimise the parameters of their experiments either from the very beginning (when they start designing the experiments) or improve their existing workflow in an iterative fashion. In the second case, a coordinator may collect measurements from laboratories to assess potential bias...

Deliverable Report D4.4 Mechanism-ofaction Modelling Tools

Penny Nymark Friederike Ehrhart
This deliverable describes the mechanistic modelling task which was developed within WP 4 of eNanoMapper project. Three main issues were handled in this task: 1) we initiated a ENMs portal with nanosafety-relevant pathways to WikiPathways, an open database for biological pathways, as a basis for pathway analysis; 2) we established workflows for ENMs data analysis, (mainly transcriptomics data), to reveal the significantly and differently affected biological pathways by a variety of exposure scenarios and ENMs...

Deliverable Raport D4.3 nQSAR Modelling infrastructure

Philip Doganis Charalambos Chomenidis
This deliverable describes the nQSAR Modelling infrastructure developed within Work Package 4 to support eNanoMapper modelling activities. First, we describe the novelties in the Application Programming Interface (API) that allow seamless integration of any web service or algorithm, independently of architecture or language of algorithm, with the sole condition that it complies with the Jaqpot API. Second, a complete walkthrough of the Jaqpot modelling workflow is provided, from experimental data bundle to dataset, models and...

Deliverable Report D4.2 Descriptor Calculation Algorithms and Methods

Georgia Tsiliki Philip Doganis
This deliverable focuses on extensions to the OpenTox descriptor calculation services, in order to account for the supra-molecular pattern (size, shape, porosity and irregularity of the surface area and coatings) governing the activities, effects and properties of ENMs. New descriptors have been derived by applying image analysis techniques on raw microscopy nanomaterial images. The quantummechanical semi-empirical calculation services using the MOPAC open-source software have been adapted and tested on the special requirements of ENM. Experimentally...

Deliverable Report D3.4 ISA-Tab templates for common bioselected set of assays

Nikolay Kochev Nina Jeliazkova
Data preparation is an activity pertinent to most of the NanoSafety Cluster (NSC) projects. The importance of standardized means for data logging and data sharing is acknowledged by both data providers and data users, but the current practice consists mostly of disparate efforts, resulting in incompatible files. The ISA-TAB (Investigation-Study-Assay) and ISA-TAB-Nano formats are cited in many projects, but not used due to several reasons, e.g. lack of user friendliness or the steep learning curve...

Deliverable Report D3.3 Modules and services for linking and integration with third party databases

Micha Rautenberg Egon Willighagen
Understanding the biological effects of nanomaterials needs at least insight into the physicochemical identity; recent research has however shown how important the biological identity is in fully understanding the biological mechanisms. This requires, however, interlinking nanomaterial databases with databases from other domains. This deliverable reports on our efforts outlined in Tasks 3.4 and 3.6 to implement the Linked Data ideas to data in the nanosafety community, taking into account this recent guidance document, experimenting with...

Deliverable Report D1.1 Requirements Analysis and Systems Design

Barry Hardy Markus Hegi
The objective of WP 1 is, to enable the communication between the eNanoMapper project and the wider nanosafety community and to ensure the alignment of the objectives of eNanoMapper with the needs of the community. At the start of the project, an extensive requirements analysis was conducted and based on the results, an overall system design was worked out. The process was based on the methodology of Contextual Design and included five steps, each building...

Deliverable Report D1.2 Use Cases and Test Suite

B. Smeets E.L. Willighagen
WP1 (Community Outreach) focuses on the communication between our project and the wider nanotechnology community. Its ultimate goal is to establish various tools which would enable collaboration with members of the nanotechnology community and to receive feedback on our project. This includes our involvement in the NanoSafety Cluster Database Working Group, a Requirements Analysis, and collaborations with other NanoSafety Cluster projects. The goals are to collaboratively develop interoperability documents together with definitions of personas and...

Deliverable Report D1.4 User Guidance

Lucian Farcal Micha Rautenberg
The Provision of User Guidance (on data input, access to data, tool use, experimental design, model building) was developed from an early stage of development and was improved throughout the project with a final version that is made available in this deliverable, D1.4. User guidance and training was implemented through online tutorials, meetings, face-to-face workshops and conferences (organised by WP6). An eNanoMapper dictionary with the definitions of terms and abbreviations has been developed and deployed.

Deliverable Report D2.1 Framework and Infrastructure for Ontology development, versioning and dissemination

Egon Willighagen Janna Hastings
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safe by design” engineered nanomaterial development. Work Package 2 of this effort will develop and disseminate a comprehensive ontology for the nanosafety domain, encompassing nanomaterials and all information relating to their characterization, as well as relevant experimental paradigms, biological interactions and safety information. This deliverable report describes the technical infrastructure that has been created in order to support...

Deliverable Report D2.2 Ontology Content Types and Existing Community efforts

Gareth Owen Janna Hastings
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safe by design” engineered nanomaterial development. Work Package 2 of this effort will develop and disseminate a comprehensive ontology for the nanosafety domain, encompassing nanomaterials and all information relating to their characterization, as well as relevant experimental paradigms, biological interactions and safety information. This deliverable report describes the primary content areas within the nanomaterial safety domain which need...

Deliverable Report D2.3 Ontology initial release

Egon Willighagen Janna Hastings
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safe by design” engineered nanomaterial development. Work Package 2 of this effort is developing and disseminating a comprehensive ontology for the nanosafety domain, encompassing nanomaterials and all information relating to their characterization, as well as relevant experimental paradigms, biological interactions and safety information. This deliverable report describes the initial release of the ontology, including the content and organization,...

Deliverable Report D2.4 Ontology final release

Egon Willighagen Linda Rieswijk
The eNanoMapper project aims to build an ontology and database to collate and describe data relevant for “safety by design” engineered nanomaterial development. Work Package 2 of this effort is developing and disseminating a comprehensive ontology for the nanosafety domain, encompassing nanomaterials and all information relating to their characterization, as well as relevant experimental paradigms, biological interactions and safety information. This deliverable report describes the work undertaken for the final release of the ontology (Task...

Deliverable Report D3.1 Technical Specification and initial implementation of the protocol and data management web services

Bengt Fadeel Philip Doganis
We reviewed the current state of the art of availability and requirements for nanomaterial databases, through reviewing the literature, online resources, engaging in discussions with the NanoSafety Cluster working groups and using the results of a community-based requirement analysis. The eNanoMapper data architecture was developed and consists of a set of web services, providing access to experimental protocols and data, search service and modules, facilitating linking and data transfer between third party databases. This design...

Deliverable Report D3.2 Data Management System with extended search capabilities

Nikolay Kochev Nina Jeliazkova
The eNanoMapper prototype database, described in the eNanoMapper report “Technical specification and initial implementation of the protocol and data management web services” (2015), was extended with new search functionality: chemically-aware search, several options for searching experimental data, semantic search including SPARQL endpoint free text search, supported by eNanoMapper ontology and annotated database entries. The types of the new queries are informed by the list of scientific questions identified through the requirements analysis and during the...

Solutions for industry: NRC annual report, 2013-2014

Conseil National De Recherches Du Canada

Des solutions pour l'industrie : rapport annuel du CNRC, 2013-2014

Conseil National De Recherches Du Canada

Evaluation of the Business Innovation Access Program: evaluation report, June 22, 2015

Science-Metrix

Évaluation du Programme d’accès à l’innovation pour les entreprises : rapport d’évaluation

Science-Metrix

Evaluation of NRC Measurement Science and Standards

Conseil National De Recherches Canada. Bureau De La Vérification Et De L'évaluation
This report presents the results of the 2014‑15 evaluation of the National Research Council (NRC) Measurement Science and Standards (MSS) Portfolio. MSS is Canada's national metrology institute (NMI), conducting research and providing primary metrology services in the national interest. In this role, MSS provides traceability to the International System of Units (the SI, or metric system) for Canada and supports Canada's participation in the Bureau international des poids et mesures (BIPM). The Portfolio hosts three...

Registration Year

  • 2017
    780,037

Resource Types

  • Text
    780,037

Affiliations

  • DataCite
    13
  • University of California, Riverside
    4
  • Bonn-Rhein-Sieg University of Applied Sciences
    4
  • Purdue University System
    2
  • University of Music and Performing Arts Vienna
    1
  • Ho Polytechnic
    1
  • Duke University
    1
  • University of Kentucky
    1
  • University of California, Santa Barbara
    1
  • California Digital Library
    1