MOLGENIS

MOLGENIS

 A data platform to help researchers accelerate scientific collaboration and help bioinformaticians make researchers happy. Facility
A data platform to help researchers accelerate scientific collaboration and help bioinformaticians make researchers happy.
MOLGENIS is a modular web application for scientific data that helps users find, capture, exchange, manage, and analyse scientific data. It was developed within the UMCG by the Genomics Coordination Center.

Initially called 'molecular genetics information system', MOLGENIS was born from molecular genetics research but has now grown, thanks to many sponsors and contributors, to be used in many scientific areas, including biobanking, rare disease research, patient registries, and data catalogues. MOLGENIS provides researchers with user-friendly, scalable software infrastructures to capture, exchange, and exploit the large amounts of data being produced by scientific organisations all around the world.

MOLGENIS can be applied in many ways to produce successful data solutions. Examples of current applications created using MOLGENIS include:

  • UMCG Research Data Catalogue: This catalogue aims to increase the visibility of UMCG data and sample resources in order to stimulate their findability, accessibility, and reuse, three major pillars of the FAIR principles.
  • BBMRI-ERIC Directory: This directory is a tool that collects and makes available information about the biobanks throughout Europe that are willing to share their data and/or samples and to collaborate with other research groups.
  • Genturis registry: This is the European registry for patients with one of the Genetic Tumour Risk Syndromes (Genturis). The registry is affiliated to the European Reference Network for all patients with one of the genetic tumour risk syndromes (ERN GENTURIS).
  • Variant Interpretation Pipeline: This is a flexible human variant interpretation pipeline for rare disease that uses state-of-the-art pathogenicity prediction (CAPICE) and template-based interactive reporting to support and facilitate diagnostic decision-making.
  • Armadillo: This data portal allows data stewards to share datasets on a server and researchers to analyse these data, and those shared on other servers, using the DataSHIELD analysis tools.

For more information: MOLGENIS

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MOLGENIS was created in 2002 as an open source software that was configurable to be quickly adapted to new research needs (i.e. microarray experiments). It therefore was created with a blueprint system, so users can quickly configure what they need, and then MOLGENIS quickly generates tools to manage and query those data (e.g. Nature Reviews Genetics). Now, MOLGENIS has become an infrastructure of tools, services, expertise and their partner communities, sustaining the whole ecosystem for over two decades.

Our services

  • MOLGENIS Platform is an open-source environment for managing life-science data. It supports configurable data models, secure access, data entry, curation and export, with modular apps and APIs for integration, designed to meet FAIR and privacy requirements.

    MOLGENIS Platform

  • MOLGENIS Catalogus is a data discovery catalogue for cohorts, biobanks and datasets. It exposes rich metadata and search, enabling researchers to find relevant studies and variables before submitting data access requests.

    MOLGENIS Catalogus

  • MOLGENIS Registries supports configurable clinical and disease registries. Professionals can enter longitudinal data; researchers can query and export pseudonymised datasets under governance, enabling quality improvement and research.

    MOLGENIS Registries

  • VIP is a flexible human variant interpretation pipeline for rare disease using state-of-the-art pathogenicity prediction (CAPICE) and template-based interactive reporting to facilitate decision support. It supports annotation, filtering and classification of genetic variants.

    MOLGENIS VIP

  • Armadillo is a federated, privacy-preserving analysis platform. It runs scripts at data-owning sites and only shares aggregated results, enabling multi-cohort collaboration without centralizing sensitive data.

    MOLGENIS Armadillo

  • MOLGENIS HPC integration connects data in MOLGENIS to high-performance computing environments. It enables secure, large-scale analyses (e.g. GWAS, sequencing) by linking data selection to computational workflows.

    MOLGENIS HPC

Contact

University Medical Center Groningen (UMCG)
Genomics Coordination Center (GCC)
PO Box 30.001
9700 RB Groningen
The Netherlands

Visiting address

University Medical Center Groningen (UMCG)
Genomics Coordination Center (GCC)
Hanzeplein 1
9713 GZ Groningen