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University of Basel

Core Facilities

The University of Basel has state-of-the-art research infrastructures that are available to researchers and external users as service and technology centers within the framework of Core Facilities. Some cost-intensive infrastructures are assigned to a professorship as a shared facility and can be used within the framework of collaborations. As a comprehensive university, the University of Basel offers the opportunity to promote interdisciplinary collaboration and to research scientific topics with teams from different disciplines.

Core Facilities of the University of Basel

Microscopy Network Basel

© University of Basel, Microscopy Network Basel
© University of Basel, Microscopy Network Basel

The Microscopy Network Basel (MNB) is an association of academic microscopy facilities in the Basel region and is supported by the Departments of Biozentrum and Biomedicine of the University of Basel, the Department of Biosystems Science and Engineering (D-BSSE) of ETH Zurich and the Friedrich Miescher Institute (FMI). The MNB aims to foster collaborations and scientific exchange in the field of bioimaging by organizing courses, workshops and seminars to mutually utilize existing resources and infrastructures in the field of light microscopy.


 

BioEM Lab

Transmission electron microscopy of human brain microtissue, © University of Basel, BioEM Lab
Transmission electron microscopy of human brain microtissue, © University of Basel, BioEM Lab

The BioEM Lab at the Biozentrum offers high-resolution imaging techniques of macromolecules, cells and tissues using transmission electron microscopy (TEM and CryoTEM) and as 3D reconstruction of proteins and cells using single particle approach and electron tomography.

Director: Dr. Mohamed Chami


 

Imaging Core Facility

Mouse brain, © Universität Basel, Imaging Facility / Labor Doetsch
Mouse brain © University of Basel, Imaging Facility / Laboratory Doetsch

The Imaging Core Facility of the Biozentrum is a technology platform for the use of highly sophisticated light microscopes. It provides image analysis support to research groups and makes state-of-the-art microscopy techniques and software solutions available to scientists.

Director: Dr. Oliver Biehlmaier


 

Microscopy Core Facility

Embryo cells, © University of Basel, Microscopy Core Facility
Embryo cells, © University of Basel, Microscopy Core Facility

The Microscopy Core Facility of the Department of Biomedicine at the University of Basel provides equipment and expertise in the field of high-end microscopy and image analysis at two locations. The Facility supports researchers on a daily basis in the acquisition of everything from simple histology images to super-resolution microscopy in living cells or customized programs for automation and analysis.

Directors: Dr. Michael Abanto and Pascal Lorentz


 

Bioinformatics

Bioinformatics analysis, © University of Basel, Bioinformatics Core Facility
Bioinformatics analysis, © University of Basel, Bioinformatics Core Facility

The Bioinformatics Core Facility is the competence center of the Department of Biomedicine in the field of computational biology and biostatistics. It offers tailor-made solutions for analysis, visualization and interpretation of complex biological data, especially in the field of high-throughput genomics and proteomics. Consulting and teaching complete the offer.

Director: Robert Ivánek


 

Histology Core Facility

Immunohistochemistry in human intestine, © University of Basel, Histology Core Facility
Immunohistochemistry in human intestine, © University of Basel, Histology Core Facility

The Histology Core Facility of the Department of Biomedicine provides services and support to researchers in the field of standard and high-end histology and histopathology, from sample preparation to automated image analysis.

Director: Dr. Diego Calabrese
Contact: histology-dbm@unibas.ch


 

Life Sciences Training Facility

Preparation of genome sequencing at the LSTF, © University of Basel, Life Science Training Facility
Preparation of genome sequencing at the LSTF, © University of Basel, Life Science Training Facility

The Life Sciences Training Facility (LSTF) of the Biozentrum and the Department of Biomedicine is operated in close collaboration with the Genomics Facility Basel and supports researchers in experimental genome sequencing and related applications.

Directors: Prof. Dr. Andreas Papassotiropoulos, Philippe Demougin


 

Genomics Facility Basel

Transfer of genetic information into the world of colours, © University of Basel, Genomics Core Facility
Transfer of genetic information into the world of colours, © University of Basel, Genomics Core Facility

The Genomics Facility Basel is operated by the University of Basel and the Department of Biosystems Science and Engineering (D-BSSE) of ETH Zurich and offers services in the field of genome sequencing and analysis with state-of-the-art sequencing systems. Projects of all kinds – from tumor characterization at single cell resolution to the assembly of complete genomes of microorganisms, animals and plants – are supported.

Director: Dr. Christian Beisel


 

Proteomics Core Facility

Mass spectrometric analysis, © University of Basel, Proteomics Core Facility
Mass spectrometric analysis, © University of Basel, Proteomics Core Facility

The Proteomics Core Facility at the Biozentrum provides expertise and resources to researchers in the field of biological mass spectrometry and is involved in the development of new quantitative and qualitative methods for the analysis of proteins and their modifications.

Director: Dr. Alexander Schmidt


 

Nuclear Magnetic Resonance – Swiss NMR Facility

NMR spectroscopy reveals atomic details of drug-induced signaling in the β1-adrenergic G-protein coupled receptor, © University of Basel, Nuclear Magnetic Resonance
NMR spectroscopy reveals atomic details of drug-induced signaling in the β1-adrenergic G-protein coupled receptor, © University of Basel, Nuclear Magnetic Resonance

The Biozentrum uses Nuclear Magnetic Resonance (NMR) to investigate the structure, dynamics and interactions of biomolecules in order to understand and modify their function, for example with regard to diseases or drugs. In addition, NMR spectroscopy is being further developed for the study of proteins.

Together with the University of Zurich and ETH Zurich, the Swiss NMR Facility was established to provide researchers with access to the most powerful equipment in the field of high-field NMR spectroscopy. Researchers of the University of Basel can use the facility within a fixed quota of measurement time.

Director: Prof. Dr. Sebastian Hiller
Contact: Alexandra Meng


 

Magnetic Resonance Imaging (MRI)

Siemens 3 Tesla Magnetic resonance whole body imaging scanner, © University Hospital Basel, MRI
Siemens 3 Tesla Magnetic resonance whole body imaging scanner, © University Hospital Basel, MRI

At the University Hospital Basel, a 3 Tesla whole-body magnetic resonance tomograph (Siemens Magnetom Prisma) with a powerful gradient system (80 mT/m @ 200 T/m/s) and high field homogeneity (0.2 ppm at 40 cm DSV) is available for human studies. The system also has a second broadband amplifier for excitation of non-proton nuclei. The scanner is mainly used for research projects in Radiological Physics, but can also be shared by other research groups.

Director: Prof. Dr. Oliver Bieri


 

Nano Imaging Lab

Catalyst, © University of Basel, Nano Imaging Lab
Catalyst, © University of Basel, Nano Imaging Lab

The Nano Imaging Lab of the Swiss Nanoscience Institute (SNI) is a service platform for imaging and analysis of nanostructures. It has various scanning electron microscopes (SEM and cryo-REM), transmission electron microscopes (TEM) and atomic force microscopes (AFM). It also offers focused ion beam (FIB) technology, confocal microscopy and various spectroscopic analysis capabilities.

Director: Dr. Markus Dürrenberger


 

Center for Medical Image Analysis & Navigation

Skull of an aneurysm patient in virtual reality, © University of Basel, CIAN DBE
Skull of an aneurysm patient in virtual reality, © University of Basel, CIAN DBE

The Center for Medical Image Analysis & Navigation (CIAN) develops new tools and methods in the field of medical imaging. This involves, for example, optimizing processes in computed tomography and magnetic resonance imaging, developing learning algorithms for faster and more precise evaluation of medical images, or making this data available in virtual and augmented reality for surgery planning, patient education and training.

Director: Prof. Dr. Philippe Cattin


 

Micro- and Nanotomography

3D rendering of a mouse, © University of Basel, MiNa DBE
3D rendering of a mouse, © University of Basel, MiNa DBE

The Core Facility Micro- and Nanotomography (MiNa) of the DBE at the University of Basel offers the possibility to visualize objects non-destructively with micro- or even submicrometer resolution using hard X-rays. The nanotom® m system from phoenix|x-ray, GE Sensing & Inspection Technologies GmbH, Wunstorf, Germany, and the Skyscan 1275, Bruker microCT, Kontich, Belgium, are available. The three-dimensional data are so large that quantitative analysis is usually performed automatically. The Core Facility is also available to external users from science and industry.

Director: Dr. Georg Schulz


 

3D Print Lab

Cranial implant from 3D printing, © Christian Flierl, Universität Basel
Cranial implant from 3D printing, © Christian Flierl, Universität Basel

The 3D Print Lab and the Swiss MAM (Medical Additive Manufacturing) research group at the DBE work closely together on 3D surgical planning and medical 3D printing including bioprinting (3D printing of cells and support structures), high-performance materials, smart implants, image analytics and segmentation techniques. Patient-specific models are printed from MRI or CT data for use in the clinics of the University Hospital Basel.

Director: Prof. h.c. Dr. Dr. Florian Thieringer MHBA


 

Center for Transgenic Models

Microinjection of mouse embryonic stem cells into a mouse blastocyst embryo, © University of Basel, CTM
Microinjection of mouse embryonic stem cells into a mouse blastocyst embryo, © University of Basel, CTM

The Center for Transgenic Models (CTM) service platform provides researchers with comprehensive services and expertise in the field of transgenic animal models, in particular the generation and cryopreservation of mouse strains. CTM offers a variety of standard techniques and develops new gene delivery methods, professionally implementing the 3Rs principles for responsible animal experimentation.

Director: Dr. Pawel Pelczar
Contact: ctm@unibas.ch


 

sciCORE

High Performance Computing Center, © University of Basel, sciCORE
High Performance Computing Center, © University of Basel, sciCORE

sciCORE is the competence center for scientific computing and provides the infrastructure for high-performance computing, storage and processing of scientific data. sciCORE implements innovative computing solutions in close collaboration with researchers and offers training and consulting to scientists. sciCORE is also a Core Facility of the Swiss Institute of Bioinformatics (SIB) and one of the BioMedIT nodes supporting the Swiss Personalized Health Network (SPHN) project.

Director: Dr. Thierry Sengstag
Contact: scicore@unibas.ch


 

Center for Data Analytics (CeDA)

Random orientation crop, © University of Basel, sciCORE
Random orientation crop, © University of Basel, sciCORE

The Center for Data Analytics (CeDA) is an interdisciplinary competence center for quantitative data analysis at the University of Basel. The consulting and support services of the CeDA are provided by data analysts with expertise in biomedicine, natural sciences, and social sciences and humanities. The activities of the CeDA are coordinated by sciCORE, the Digital Humanities Lab (DHLab) and the Data Analytics Professorship at the Department of Mathematics and Computer Science.

Director: Prof. Dr. Ivan Dokmanić
Contact: Dr. Geoffrey Fucile


 

Data and Service Center for the Humanities

Data storage, © University of Basel, Digital Humanities Lab
Data storage, © University of Basel, Digital Humanities Lab

The Data and Service Center for the Humanities (DaSCH) is a national research infrastructure that guarantees long-term access to research data in the humanities according to the FAIR principles. DaSCH is operated by the University of Basel (Digital Humanities Lab) on behalf of the SAGW and the SNSF. It is available to all researchers in Switzerland to keep qualitative humanities research data available online in the long term, even after the end of projects.

Director: Prof. Dr. Lukas Rosenthaler
Contact: info@dasch.swiss


 

Research and Infrastructure Support (RISE)

Text analysis using statistical methods, © University of Basel
Text analysis using statistical methods, © University of Basel

The Core Facility Research and Infrastructure Support (RISE) supports researchers in the humanities and social sciences at the University of Basel in issues related to the design of computer-based research, the production and analysis of data, digital editions and user-oriented visualization of data, and the sustainable and open availability of data. RISE is based at the Digital Humanities Lab and the University Library of the University of Basel.

Director: Prof. Dr. Gerhard Lauer
Contact: Prof. Dr. Lorenza Mondada



 

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