User guide
H2020 GRACIOUS (case study silica) - eNanoMapper database

https://enanomapper.adma.ai

Portal

The Gracious_silica database is accessible only to project partners.

Ask your WP leader for database access

Click on Log in link at the top right.

login

Once logged in, you will be redirected to the main screen.

Main project page

On the main page there are several links to the Search, Template Wizard, User guide (this page), etc.

main

Click on the Search link to go to the Search page

Search page

main

There are several summaries at the left panel:

Every panel is expandable and shows the types of elements found for the particular query

Expand the Projects panel and click on GRACIOUS. This will filter the results and only data generated by GRACIOUS project will be shown.

search

The filters can be combined.

Expand the Nanomaterial type panel and select quantum dot. These are ontology terms assigned to each material , e.g. NPO_1373

filter1

The panels show the types and counts of elements found for the particular query

i.e, the GRACIOUS project and quantum dot materials in this case.

The Methods panel shown indicate there is GRACIOUS data for quantum dot measured by these methods. The Method annotation panel contains the ontology terms denoting the same methods.

filter2

Exploring the data

Per material - click the Material and Study details link for particular material

study

Export data for all query results - Export tab

Compact summary report

export_compact

The report is an Excel file

export_compact_results

Data export

Select the TXT icon and click on Download filtered entries as TSV

export_tsv

The result is a spreadsheet (.txt , tab separated text file)

export_tsv_results

Predefined queries

predefined queries

Select EP_MASS_SPECIFIC_SURFACE_AREA and click Apply. This will change the active query and will select materials with experimental data for specific surface area..

predefined queries results

This query could be further refined using the widgets at the left, and data exported as described.

Search by ontology terms

OBI_0302736 (comet assay) is a term defined in Ontology for Biomedical Investigations (OBI) BioPortal link

pontology query

Summary

Programmatic access (Application Programming Interface - API)

API documentation

apidocs

eNanoMapper client libraries

Jupyter notebooks

https://github.com/ideaconsult/notebooks-ambit/blob/master/enanomapper/tutorial.ipynb https://github.com/ideaconsult/notebooks-ambit/blob/master/enanomapper/summary.ipynb https://github.com/ideaconsult/notebooks-ambit/blob/master/enanomapper/explore.ipynb

Summary charts generated with explore.ipynb

jp1

jp2

Data entry

The data entry for eNanoMapper and the Template Wizard are described in this tutorial.

This guide is available at Help/User guide