EXPANSE exposome toolbox
On this page we provide an overview of the tools that have been developed in the context of the EXPANSE project. Information on how to access the tools has been provided for each tool. For general information about the tools please contact expanse@uu.nl.
EXPANSE meta-data inventory in MOLGENIS catalogue
The cohorts that participate in EXPANSE are publishing their meta-data in the MOLGENIS catalogue to adhere to FAIR data principles, and to highlight the available data to researchers who are potentially interested in using these. Over time, the ambition is to have complete overview of the information that is available for cohorts that are relevant for Exposome research.
In addition to EXPANSE, many other projects and networks (including the 9 projects that are part of the European Human Exposome Network) have published their meta-data in the MOLGENIS catalogue.
The catalogue can be found here
Exposome Maps tool
Introduction and link to exposome data platform
EXPANSEEKER mobile phone application
Expanseeker is the official app of Urban Labs study within the EXPANSE project.
Help scientists understand the relationship between the exposome and health! With Expanseeker you actively take part in Challenges and Activities to help researchers measure vast amounts of exposome data. Get to know Professor Aternum, earn decorations, and give your opinion on the (ongoing) research efforts.
The app is currently only open to participants of the EXPANSE Urban Labs study. A test account can be requested via expanse@uu.nl
The app can be downloaded here:
https://play.google.com/store/apps/details?id=com.GamesForHealth.Expanse&hl=nl&gl=US
https://apps.apple.com/nl/app/expanseeker/id1560677464
Stability Selection and Consensus Clustering in R: The R Package sharp
The R package sharp (Stability-enHanced Approaches using Resampling Procedures) provides an integrated framework for stability-enhanced variable selection, graphical modelling and clustering. In stability selection, a feature selection algorithm is combined with a resampling technique to estimate feature selection probabilities. The package offers flexibility in the modelling, includes diagnostic and visualisation tools, and allows for parallelisation.
A description of the approach is available here. The package can be downloaded from here
Agent based model to assess the urban exposome interventions
An agent based modeling (ABM) approach was developed for the assessment of urban exposome interventions. Theoretical backgound and implementation of the model are described in Sonnenschein et al. (https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7615180/) and EXPANSE Deliverable D4.3 (November 2023).
The EXPANSE ABM approach uses open source tools for the underlying methods and example applications, and as such can be used for the construction of ABM models for a wide range of settings and types of interventions. For that purpose, the ABM platform and tools and the deliverable describing the approach in detail can be requested via EXPANSE: expanse@uu.nl.
Exposome Explorer
Exposome-Explorer is a database dedicated to biomarkers of exposure to environmental risk factors for diseases. It aims to provide comprehensive data on all known biomarkers of exposure to dietary factors, pollutants, and contaminants measured in population studies.
Data are systematically and manually collected from the scientific literature. The database includes detailed information on the nature of biomarkers, populations in which biomarkers have been measured, biospecimens analysed and analytical methods used to measure biomarkers, concentrations in biospecimens, correlations with other types of exposure measures, and reproducibility over time.
Exposome Explorer can be found here