Active GO FAIR Implementation Network
The Implementation Network (IN) was established in March 2017 in Leiden during a meeting attended by more than 30 stakeholders from all over Europe (academia, UMCs, research institutes including EMBL-EBI, small and medium companies, software companies, FAIR and linked-data experts) with interest and expertise in the field of metabolomics. Building on the Horizon 2020 PhenoMeNal e-infrastructure initiative the IN is motivated to reduce the hurdles to metabolomics data discovery, dissemination and reuse, for human data within the legally binding patient rights and national data protection and ELSI laws. Beyond Europe, members of the Metabolomics IN are involved in overseas initiatives such as NIH Data Commons Pilot Project Consortium programs and associated projects around FAIR evaluation.

Main purpose and objectives
Cheminformaticians, bioinformaticians, biologists, data scientists, computer scientists and representatives from data archives and publishers congregated to voice their support to further the development and adoption of data policies and data standards with the purpose of realizing the vision of machine-readable FAIR datasets in the field of Metabolomics and Fluxomics.

The IN aims at expanding its supports for FAIR data of metabolic phenotyping beyond human. Domains including plant, microbial, biodiversity, environmental sample characterisation need to be covered as well. In particular, it aims to work with the biodomain communities and FAIR developers to develop a series of “FAIR by design” components to ensure findability and maximise data reuse and improved data availability, thereby optimizing use of publicly funded resources. This also aims to generate metabolomics data which are “FAIR at the source”.

Targeted Objectives for the Internet of Fair Data and Services:

  • Form and develop the open Metabolomics IN on metabolomics data and services and invite others to join
  • Collectively develop and implement standards compliant with FAIR principles with the wider research community and to actively communicate these
  • Work closely together with other life sciences communities on better capturing and understanding phenotypes, enabling integrated approaches
  • Support the GO FAIR initiative with the widespread implementation of the FAIR principles in the European Open Science Cloud, contributing to a global open internet of FAIR data and services

Main tasks

  • Develop and implement strategies (e.g. machine actionable checklists) to generate metabolomics data, which are “FAIR at the source”, thus allowing for cross-omics applications and integrated life sciences research.
  • Develop and Implement “FAIR-by-design” cloud-compatible and scalable computing tools, policies, and data processing pipelines (e.g. workflows such as Galaxy modules), relying on FAIRsharing standards resource catalog to access Standards and FAIR metrics, and already embedded in several other GO FAIR INs.
  • Planning and organising hackathons, workshops (including metadata for machines workshops), and hands-on trainings to actively communicate and train researchers in applying the FAIR tools, workflows and pipelines and integration of FAIR data sources for integrated life sciences research.
  • Develop plans regarding service implementations, in particular publishing and dissemination services tightly coupled with the primary public data archives (EMBL-EBI MetaboLights and NIH Metabolomics Workbench) to deliver the needs of the community.
  • Work with Scientific Societies and Standardization bodies (such as IUPAC, Metabolomics Standards Initiative, Metabolomics Society) to implement, contribute and extend standard specifications relevant to the field.
  • Build, improve and apply the FAIR metrics in the community to assess the progress of continuous improving the FAIRness of metabolomics data, tools and workflows.
  • Learning on a practical level from other GO FAIR INs – by participating in joint cross-IN workshops on common challenges organized by the GO FAIR office. The IN has particular interest in collaborating with the GO FAIR IN on Chemistry, Food Systems, Biodiversity, Nanoparticles, Rare diseases and OPEDAS.

Manifesto
Download the manifesto (link to pdf-file).

Contact
Merlijn van Rijswijk

Partners

  • Christoph Steinbeck, Jena University, Germany / European Metabolomics Infrastructure Foundation
  • Merlijn van Rijswijk, Netherlands Metabolomics Centre / European Metabolomics Infrastructure Foundation / ELIXIR-NL, The Netherlands
  • Maria Sorokina, Jena University, Germany
  • Steffen Neumann, Kristian Peters, Leibniz Institute for Plant Biology, Germany
  • Claire O’Donovan, EMBL-EBI, United Kingdom
  • Thomas Hankemeier, Michael van Vliet, Leiden University, The Netherlands
  • Christine Kirkpatrick, San Diego Supercomputer Center, US National Data Service, NIH Metabolomic Workbench, USA
  • Philippe Rocca-Serra, Susanna Sansone, Pete McQuilton, University of Oxford, United Kingdom
  • Daniel Schober, Leibniz Institute for Plant Biology, Germany
  • Chris Evelo, Egon Willighagen, Maastricht University, The Netherlands
  • Herman van Vlijmen, Leiden University / Janssen Pharmaceuticals, The Netherlands
  • Kees van Bochove, The Hyve, The Netherlands
  • Jildau Bouwman, TNO, The Netherlands
  • Albert Mons, Phortos Consultants, The Netherlands
  • Arie Baak, EURETOS, The Netherlands
  • Andra Waagmeester, Micelio, Belgium
  • Justin van der Hooft, Bioinformatics Group, Wageningen University, Wageningen, The Netherlands
  • Reza Salek, Augustin Scalbert, International Agency for Research on Cancer (IARC), Lyon, France
  • Ola Spjuth, Kim Kultima, Uppsala University, Sweden
  • Nicole van Dam, iDiv, Jena University, Germany
  • Uthe Henriette, iDiv Ecometeor, Germany
  • Kairi Koort, Ruth Shimmo, Tallinn University, Estonia
  • Victoria Dominguez Del Angel, Institut Français de Bioinformatique, France
  • Alejandra Gonzalez-Beltran, University of Oxford, United Kingdom
  • Marta Cascante, Universitat de Barcelona, Spain
  • Tim Ebbels, Imperial College London, United Kingdom
  • Warwick Dunn, University of Birmingham, United Kingdom
  • Carole Goble, The University of Manchester, United Kingdom (on behalf of ELIXIR-UK)
  • Kris Laukens, Youzhong Liu, University of Antwerp, Belgium
  • Jean-Marie Colet, University of Mons, Belgium
  • Maria Klapa, Foundation for Research & Technology Hellas (FORTH)