Utrecht Sequencing Facility
Facility manager: Ies Nijman
The Utrecht Sequencing Facility is a research infrastructure that provides support for Next Generation Sequencing (NGS) based research. We aim to stimulate efficient research and innovation by sharing expertise and providing access to NGS technology. We strive to increase knowledge transfer, enable stronger interaction and cooperation, and optimize the use of resources. Embedded within an active research environment, we support collaborations to achieve scientific excellence.
UMCU Bioinformatics Expertise Core, UBEC
Facility manager: Ies Nijman
The UBEC provides bioinformatics support and services as an expertise centre within the Center for Molecular Medicine at the UMC Utrecht. The services are currently only available within the UMCU and for partner institutes on the Utrecht Science Park. Like the Utrecht Sequencing Facility the UBEC works on a operational level, providing researchers with the tools and input they need to further their computational research. We operate within the larger Utrecht Bioinformatics Center community and provide bioinformatics and OMICS related education within the Utrecht bio-informatics educational track.
Proteomics facility
Facility manager: Harmjan Vos
The Proteomics4Oncode facility (a joint facility housed within CMM at UMC Utrecht and the RIMLS at Radboud UMC, Nijmegen) operates four state-of-the-art, high-resolution instruments: an Orbitrap Tribrid Eclipse, 2 Orbitrap Tribrid Fusion instruments and an Orbitrap Exploris 480.These mass spectrometers can be used for a broad variety of applications, ranging from quantitative whole proteome measurements to post-translational modification (PTM) analyses (phospho, acetyl, etc.) and affinity purification of protein complexes. In addition to these standard workflows we are also open to work with our customers on customized approaches to address specific questions such as protein or PTM turnover experiments or absolute whole proteome measurements. Furthermore, Proteomics4Oncode provides advice to help you design the best possible experimental setup for your research question. Finally, automated phospho-enrichment and offline chromatography workflows are also available upon request.
UCyTOF
Facility manager: Mojtaba Amini
Mass cytometry is a multiplex proteomics detection method, that makes use of Time-of-Flight mass spectrometry. We offer both imaging mass cytometry(IMC), and analysis of single cell suspensions (CyTOF). IMC Detailed visualization of complex tissue, such as inflamed or cancer tissue, has the potential to reveal pathological processes that contribute to disease. Common imaging techniques are limited by autofluorescence, and to a few markers. To overcome this problem, we have implemented IMC. IMC is based on antibody labeling of tissue sections, cell pellets and organoids and can detect up to 40 markers simultaneously. IMC is ideal to analyze expression levels of markers in individual cells in tissue at subcellular resolution, while containing spatial information. CyTOF is a well-established method used to analyze cells in suspension: blood, leukemia, or tissue suspension. CyTOF allows multiplex protein analysis, ~40 markers ,making use of heavy-metal labeled antibody panels. CyTOF is ideal to perform in-depth phenotyping of your samples, allowing clustering analysis to identify differences between study conditions and patient groups.
Metabolomics facility
Facility manager: Edwin Stigter
Soon more.
Cell Microscopy Core, CMC
Facility manager: Nalan Liv
The Cell Microscopy Core (CMC), is an expertise center for microscopy at the subcellular, cellular and tissue level. CMC is specialized in, and internationally renowned for immuno-electron microscopy (immunogold labeling of Tokuyasu cryosections) and correlative light-electron microscopy (CLEM). These methods uniquely allow the study of molecules at the nanoscale, within the ultrastructural context of the cell. CMC is ratified as the CLEM node within the national Roadmap project Netherlands Electron Microscopy Infrastructure (NEMI, https://nemi.microscopie.nl/) and the European ESFRI project EuroBioImaging (https://www.eurobioimaging.eu/).
The infrastructure of CMC comprises equipment for EM sample preparation of biological specimens, fluorescent microscopy, live-cell imaging, transmission EM, FIB.SEM and CLEM. Together this covers a full range of microscopy methods for integrated studies at the subcellular, cellular and tissue level.
Expert CMC staff provide microscopy training, assistance with experimental design and interpretation, microscopy and imaging analysis courses, and full project service. This effectively allows users to address fundamental and applied research questions that require molecular and ultrastructural information.
For full description of the available technologies, equipment and user fees please see our website.