Genomics
Proteomics
Metabolomics
Data analysis, integration & stewardship
Summary X-omics online workshop series “Strategies to Overcome Your Challenges in Multi-omics Data Integration”
In June, X-omics organized its first online workshop series. Different aspects of challenges and solutions related to multi-omics data integration were addressed in four workshops:
#1 Data standards and multi-omics data integration
#2 Linked data in practice: An RDF based-approach with SPARQLing-genomics
#3 Showcases of multi-omics data integration
#4 Pitch your own multi-omics project
The workshop series was a success and we want to thank all those who participated, the speakers, the invited experts and the workshop organizing committee.
An overview of all workshop highlights, key take-home messages, presentations and a link to the workshop recordings has been compiled and can be found in the training schools section.
We hope to see you again during future X-omics events.
Workshop series
High-Resolution mRNA and Secretome Atlas of Human Enteroendocrine Cells
Researchers from our partner institution Utrecht University have worked together with researchers from the Hubrecht Institute and in collaboration with other research teams and generated an in-depth description of the hormone-producing cells in the human gut.
These are very rare and unique cells to different species of animals which makes them difficult to study. An extensive toolbox has been developed by the researchers to study human hormone-producing cells in tiny versions of the gut grown in the lab (organoids). These tools allowed them to uncover secrets of the human gut.
More information about this research
The study findings and results are presented in the scientific journal Cell.
Latest News
Training schools
We will keep an archive available of the webinars that we have given. In this archive you will find highlights of every webinar, including the key take-home messages, presentations and recordings.
X-omics Festival 2020
Nijmegen, the Netherlands
September 28
Anna Niehues
Anna Niehues is a postdoc at Radboudumc, Nijmegen, where she works at the Center for Molecular and Biomolecular Informatics (CMBI), led by Peter-Bram ’t Hoen, and the Translational Metabolic Laboratory, led by Alain van Gool. She is currently involved in the X-omics project and the European EATRIS-Plus project. Anna previously studied Biosciences at the University of Münster (WWU) in Germany, where she also obtained her PhD. She has been working as a bioinformatician on mass spectrometry data analysis in the context of quantitative proteomics, and structural analysis of carbohydrate oligo- and polymers.
Within the X-omics project, she works as data scientist in the data analysis, integration and stewardship pillar, together with Peter-Bram ’t Hoen (work package leader) and Gurnoor Singh (data steward) from Radboudumc and other X-omics collaborators across the Netherlands. She is interested in the integration of mass spectrometry-derived data such as metabolomics data with other types of omics data in order to e.g. increase the power of biomarker studies or gain additional insights into the relationships between different molecular levels and their association with disease phenotypes. She is also interested in FAIR data analysis workflows which, alongside FAIR data, provide the means for reproducibility of multi-omics data analyses.
Gurnoor Singh
Gurnoor Singh works as a data-steward at the CMBI. After completing his Masters in Life Science informatics from the University of Bonn, Gurnoor pursued a Ph.D. in developing linked data graphs from genomics data from Wageningen University & Research. For the X-omics project, Gurnoor is working towards standardizing meta-data and data schema for harmonizing and fairify X-omics data workflows. He is also involved in the FAIR Genomes project, which aims to develop a national guideline to promote optimal (re)use of NGS data in research and healthcare. Gurnoor Singh strongly believes in the usability of the FAIR data principles in the creation of semantic data infrastructure for diverse X-omics data.
Gurnoor and Anna are coordinating the data FAIRification and multi-omics integration tasks, respectively, of the first X-omics data integration and FAIRification demonstrator, which is a collaboration between X-omics and NTR. They are both also involved in conducting various workshops for adequate data management and planning for research data.
This research was (partially) funded by NWO, project 184.034.019