Royal College of Surgeons in Ireland
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Biomarkers of nanomaterials hazard from multi-layer data

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journal contribution
posted on 2023-06-29, 13:34 authored by Vittorio Fortino, Pia Anneli Sofia Kinaret, Michele Fratello, Angela Serra, Laura Aliisa Saarimäki, Audrey Gallud, Govind Gupta, Gerard Vales, Manuel Correia, Omid Rasool, Jimmy Ytterberg, Marco MonopoliMarco Monopoli, Tiina Skoog, Peter Ritchie, Sergio Moya, Socorro Vázquez-Campos, Richard Handy, Roland Grafström, Lang Tran, Roman Zubarev, Riitta Lahesmaa, Kenneth Dawson, Katrin Loeschner, Erik Husfeldt Larsen, Fritz Krombach, Hannu Norppa, Juha Kere, Kaisa Savolainen, Harri Alenius, Bengt Fadeel, Dario Greco
There is an urgent need to apply effective, data-driven approaches to reliably predict engineered nanomaterial (ENM) toxicity. Here we introduce a predictive computational framework based on the molecular and phenotypic effects of a large panel of ENMs across multiple in vitro and in vivo models. Our methodology allows for the grouping of ENMs based on multi-omics approaches combined with robust toxicity tests. Importantly, we identify mRNA-based toxicity markers and extensively replicate them in multiple independent datasets. We find that models based on combinations of omics-derived features and material intrinsic properties display significantly improved predictive accuracy as compared to physicochemical properties alone.


European Commission through the Seventh Framework Program (FP7-NANOSOLUTIONS; grant agreement no. 309329)

Academy of Finland (grant agreement no. 322761)

EU H2020project NanoSolveIT (grant agreement no. 814572)


Data Availability Statement

The processed mRNA, miRNA, proteomics, protein corona, physicochemical properties, and BAL cell counts used in this paper have been deposited in the online Zenodo repository under the accession number The scripts used to perform the described analyses, are available from the online repository Zenodo (


The original article is available at

Published Citation

Fortino V, et al. Biomarkers of nanomaterials hazard from multi-layer data. Nat Commun. 2022;13(1):3798.

Publication Date

1 July 2022

PubMed ID



  • Chemistry

Research Area

  • Chemistry and Pharmaceutical Sciences
  • Biomaterials and Regenerative Medicine


Springer Science and Business Media LLC


  • Published Version (Version of Record)