Research Ideas and Outcomes :
Conference Abstract
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Corresponding author: Anna Niehues (anna.niehues@radboudumc.nl)
Received: 25 Aug 2022 | Published: 25 Aug 2022
© 2022 Anna Niehues, Casper de Visser, Fiona Hagenbeek, Naama Karu, Alida Kindt, Purva Kulkarni, René Pool, Dorret Boomsma, Jenny van Dongen, Alain van Gool, Peter 't Hoen
This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Citation:
Niehues A, de Visser C, Hagenbeek FA, Karu N, Kindt ASD, Kulkarni P, Pool R, Boomsma DI, van Dongen J, van Gool AJ, `t Hoen PAC (2022) A Multi-omics Data Analysis Workflow Packaged as a FAIR Digital Object. Research Ideas and Outcomes 8: e94042. https://doi.org/10.3897/rio.8.e94042
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In current biomedical and complex trait research, increasing numbers of large molecular profiling (omics) data sets are being generated. At the same time, many studies fail to be reproduced (
The implementation of FAIR principles (
We apply these practices to a multi-omics data set that comprises genome-wide DNA methylation profiles, targeted metabolomics, and behavioral data of two cohorts that participated in the ACTION Biomarker Study (ACTION, Aggression in Children: Unraveling gene-environment interplay to inform Treatment and InterventiON strategies, see consortium members in Suppl. material
Integration of data across cohorts and across data types, requires interoperability. We applied different practices to make the data FAIR, including conversion of files to community-standard formats, and capturing experimental metadata using the ISA (Investigation, Study, Assay) metadata framework (
Nextflow, ISA-API, RO-Crate, Singularity, metadata
Anna Niehues
First International Conference on FAIR Digital Objects, poster
We acknowledge the ACTION Consortium and thank the participants of the ACTION Biomarker Study.
The Netherlands X-omics Initiative is (partially) funded by the Dutch Research Council (NWO), project 184.034.019. "Aggression in Children: Unraveling gene-environment interplay to inform Treatment and InterventiON strategies” (ACTION) received funding from the European Union Seventh Framework Program (FP7/2007-2013) under grant agreement no 602768.