NanoSafety Data with eNanoMapper database

Frequently asked questions

Q1.What is an eNanoMapper database instance?

an installation of AMBIT software, implementing the eNanoMapper/AMBIT data model. Usually consists of data from individual nanosafety projects and may be protected by role-based access to keep data confidential.
The database instances offer a user-friendly web interface and an application programming interface (API). They serve as building blocks to feed the aggregated search index and provide interoperability across all or subsets of the instances.

Q2.eNanoMapper/AMBIT data model

a set of data elements and relationships, representing chemical substances with complex composition and associated experimental data, extended to nanomaterials by the EU-funded project eNanoMapper.
More data model details here.

Q3.What is 'PROJECT' - eNanoMapper database (e.g. NANoREG-eNanoMapper database)

a set of eNanoMapper database instances and an aggregated search index used for data management within a project; available at https://search.data.enanomapper.net/projects/{project} ( e.g. for NANoREG database (https://search.data.enanomapper.net/projects/nanoreg)

Q4.The Nanosafety data interface

is an online user interface enabling user friendly access to the aggregated search index of (sub)set of eNanoMapper database instances. Usually the user interface is project specific and protected but can be also publicly available.
Multiple project specific interfaces are available at https://search.data.enanomapper.net/

Q5.Data content

Data from the following projects ( FP7 NANoREG, H2020 NanoReg2, H2020 Gov4Nano, FP7 NanoTest, FP7 MARINA, FP7 ENPRA, NANOGENOTOX, H2020 GRACIOUS, H2020 NanoinformaTIX, H2020 caLIBRAte, H2020 RiskGone, H2020 PATROLS, H2020 BIORIMA, FP7 Sanowork, caNanoLab, omics metadata, FP7 eNanoMapper, ) was compiled, annotated and imported into separate eNanoMapper database instances. They can be accessed via the Nanosafety data interface at https://search.data.enanomapper.net/ and API.
Free text and faceted search as well as multiple export and summary reports are available at the search interface (menu Search)

Q6.Data access

The Nanosafety data interface at https://search.data.enanomapper.net/ is the main entry point. Access to protected project areas is granted only to project partners. If you are project partner, contact your WP leader to gain access. Once logged in, an user guide is available at the Help menu.
Programmatic access is available via REST API at https://api.ideaconsult.net, subject to the same access restrictions as for the web interface. Contact your WP leader to gain access. Once logged into the web interface, guide for developers is available at the Help menu.

Q7.References

  • Kochev, Nikolay, Nina Jeliazkova, and Ivanka Tsakovska. 2019. “CHAPTER 3. Chemoinformatics Representation of Chemical Structures – A Milestone for Successful Big Data Modelling in Predictive Toxicology.” In Big Data in Predictive Toxicology, edited by Daniel Neagu and Andrea Richarz, 69–107. RSC Publishing. 10.1039/9781782623656-00069.
  • Jeliazkova, Nina, and Vedrin Jeliazkov. 2019. “CHAPTER 5. Making Big Data Available: Integrating Technologies for Toxicology Applications.” In Big Data in Predictive Toxicology (Issues in Toxicology), edited by Daniel Neagu and Andrea-Nicole Richarz, 1 edition, 166–84. Issues in Toxicology. Cambridge: Royal Society of Chemistry. 10.1039/9781782623656-00166.
  • Jeliazkova, N., V. Koch, Q. Li, U. Jensch, J. Schneider Reigl, R. Kreiling, I. Georgiev, and B. Hubesch. 2016. “Linking LRI AMBIT Chemoinformatic System with the IUCLID Substance Database to Support Read-across of Substance Endpoint Data and Category Formation.” Toxicology Letters 258 (September): S114–15. 10.1109/BIBM.2014.6999367.
  • Jeliazkova, Nina, and Vedrin Jeliazkov. 2011. “AMBIT RESTful Web Services: An Implementation of the OpenTox Application Programming Interface.” Journal of Cheminformatics 3 (1): 18. 10.1186/1758-2946-3-18