NPLinker eScience Workshop on Natural Product Genome & Metabolome Mining

In 2023, we hosted a NPLinker eScience Workshop on natural product genome and metabolome mining. Details can be found below. We look back at a successful event.


What? Interactive tutorial-style workshop to learn and discuss the main concepts and tools used for both genome and metabolome mining, as well as their integrative use

When? Monday March 20 2023 evening – Friday March 24 2023 lunchtime (timings in CET)

Where? The workshop will take place at the Omnia Building at the Wageningen University & Research (WUR) Campus, the Netherlands. Accommodation will be close to the WUR campus.

For Whom? PhD students, Postdoctoral Researchers, or Junior Researchers

Costs? The costs for the workshop will be 450 euros – this includes accommodation, breakfast, lunch, and one evening meal. Travel costs above 250 euros for the main train/bus ticket or air fare (of standard economy type) will be compensated, with a maximum of compensation costs of 250 euros (Europe) or 750 euros (rest of the world) depending on where you start your travels.

Aims of the workshop:

  • Bring together Genome & Metabolome Miners and learn the motivation and key characteristics of main genome and metabolome mining tools.
  • Educate and train natural product researchers and other interested scientists in genome and metabolome mining.
  • Establish together with the community what are the perceived main challenges in combining genomics and metabolomics, and the wishes for tools that address these.

Are you interested in attending the workshop? Please think about how it fits your current work and project(s) and fill out the form here to indicate your interest. We will collect responses until 30 November 2022, and select participants based on the received forms. Following this, selected candidates will be asked to register early 2023 to confirm their presence. There will be several international experts in the field present during the week and to facilitate the networking aspect of the workshop, we encourage participants to bring a poster of their work related to genome and/or metabolome mining. Do you want to help spread the word? Circulate this link by email or on social media and use #NPGenMetMine2023 #NPLinker!

More information about the workshop:

Natural product discovery increasingly relies on computational frameworks and tools to support data processing, analysis, and interpretation. With the increased availability of paired genomics and metabolomics datasets (i.e., taken from the same biological material), it is important to train scientist to effectively mine these information-rich sources for natural product discovery. The NPLinker eScience project is continuing to build a framework to perform integrative omics mining that takes as input paired omics datasets. This workshop aims to educate future experts in the field to understand and use the genome and metabolome mining tools, to prepare them for integrative omics mining analysis. A second workshop within this project is planned for 2025 and will focus more on understanding and using integrative omics mining tools such as NPLinker and NPOmix, which will here be briefly introduced. In this workshop, we will mix theoretical lectures, practical tutorials, and group discussions to address the following main topics:

    • Omics Data Mining, Annotation, and Clustering
    • Genomics-specific & Metabolomics Specific (pre-)processing steps
    • Machine Learning & Artificial Intelligence Approaches
    • Standards & Ontologies
    • Data Sharing
    • Linking the Genome to the Metabolome

      • Strain correlation-based
      • Feature-based (chemical compound class, substructure)
    • Outlook/Perspective

      • NPLinker/NPOmix
      • Transcriptomics and Proteomics as Phenotypes

    We look back at a successful event. Online materials can be found here.


    Do you need more information to make up your mind? If you have content-related questions, please contact the organizers by sending an email to Dr Justin van der Hooft (; for logistical queries, please contact The organizers are grateful to the Netherlands eScience Center ( for financially supporting the organization of this workshop.