Egon WillighagenJul 8, 2024
I'm virtually in Brussels today, for the project review meeting of the #SbD4Nano project. I'll be presenting the results of WP2, roughly on hazard profiling, with some of the results in this slide
Egon WillighagenMay 20, 2024

the #SbD4Nano project is really ending soon now. We're working out the final details, writing the final deliverables. It's been fun doing the #openscience but it has also been a challenge finding enough #FAIR and open data to feed into our knowledge base to support the safe-by-design for nanomaterials.

The three papers this month tell that story: the hard work, the solutions that only lead to more closed data, and the needs for more FAIR

One step forward, two steps to the side.

BiGCaT BioinformaticsMay 2, 2024
new paper by Jeaphianne van Rijn et al.: "From papers to RDF-based integration of physicochemical data and adverse outcome pathways for nanomaterials" https://doi.org/10.1186/s13321-024-00833-0 #nanomaterial #RiskGone #NanoSolveIT #SbD4Nano #rdf
From papers to RDF-based integration of physicochemical data and adverse outcome pathways for nanomaterials - Journal of Cheminformatics

Abstract Adverse Outcome Pathways (AOPs) have been proposed to facilitate mechanistic understanding of interactions of chemicals/materials with biological systems. Each AOP starts with a molecular initiating event (MIE) and possibly ends with adverse outcome(s) (AOs) via a series of key events (KEs). So far, the interaction of engineered nanomaterials (ENMs) with biomolecules, biomembranes, cells, and biological structures, in general, is not yet fully elucidated. There is also a huge lack of information on which AOPs are ENMs-relevant or -specific, despite numerous published data on toxicological endpoints they trigger, such as oxidative stress and inflammation. We propose to integrate related data and knowledge recently collected. Our approach combines the annotation of nanomaterials and their MIEs with ontology annotation to demonstrate how we can then query AOPs and biological pathway information for these materials. We conclude that a FAIR (Findable, Accessible, Interoperable, Reusable) representation of the ENM-MIE knowledge simplifies integration with other knowledge. Scientific contribution This study introduces a new database linking nanomaterial stressors to the first known MIE or KE. Second, it presents a reproducible workflow to analyze and summarize this knowledge. Third, this work extends the use of semantic web technologies to the field of nanoinformatics and nanosafety.

BioMed Central
Show threadEgon WillighagenMar 6, 2024

if there is anyone from the NanoSafety Cluster or from any of these (S)SbD projects or anyone here at #ANTHOS24 or in the project #NanoCommons and #SbD4Nano we are working together with @elixir_europe to make project output from FAIR. It's easy enough to join and incorporate existing technical and social solutions into your project, see https://elixir-europe.org/communities/toxicology

Several people involved in the ELIXIR Toxicology Community are here in Vienna

Toxicology Community

ELIXIR
Egon WillighagenMar 5, 2024
the #Sbd4Nano semantic landscape discovered a new toxicology-related service https://github.com/h2020-sbd4nano/sbd-data-landscape-opendata/commit/ce6d9fad35f2478092d8f96808ce6db9db529e27
Updated service open landscape data · h2020-sbd4nano/sbd-data-landscape-opendata@ce6d9fa

Implementation of the Sbd4Nano Landscape with only Open Data - Updated service open landscape data · h2020-sbd4nano/sbd-data-landscape-opendata@ce6d9fa

GitHub
Show threadEgon WillighagenMar 5, 2024

MC: ZnO can be modified by hydroxylation. #ANTHOS24

me: When doing so, the surface chemistry changes, but other things change too. This is one of challenges in the #SbD4Nano project MC, me, and many others are involved in

Show threadEgon WillighagenMar 4, 2024
Returning from a nice dinner with project partners from #SbD4Nano at #ANTHOS24, thx to BNN!