Self-Use Instrumentation

Services Provided








Microarray Platform
Affymetrix GeneChip Instrument System 

The Affymetrix GeneChip system consists of a gene or probe array, hybridization oven, fluidics station, scanner, and a computer workstation. For more details please see the "Services" page.
Use of the Affymetrix equipment is limited to the Genomics and Proteomics Laboratory Manager.





Agilent Bioanalyzer 2100

The Genomics Core Facility offers quality/integrity analysis for RNA and DNA samples. Please see "Services" for more information.






Real Time qPCR / PCR Thermal Cycler
Applied Biosystems ViiA 7 Real Time System 

Two ViiA 7 Real Time Systems are available for use. The ViiA 7 systems use fluorescent-based PCR to provide quantitative detection of nucleic acid sequences using real-time analysis and qualitative detection of nucleic acid sequences using end-point and melting curve analysis. They can be used with TaqMan probe-based chemistry or intercalating dyes such as SYBR Green. The ViiA 7 qPCR machines can be run with a 96, 384 and TLDA block configuration.

Applied Biosystems ViiA 7 Real Time System User Manual






Droplet Digital PCR System
Bio-Rad QX200 Droplet Digital PCR (ddPCR) System 

The QX200 Droplet Digital PCR (ddPCR™) System provides absolute quantification of target DNA or RNA molecules for EvaGreen or probe-based digital PCR applications.

QX200 Droplet Digital PCR (ddPCR) Manual







Beckman Coulter Optima Max Ultracentrifuge

The Optima Max Ultracentrifuge is capable of handling volumes from just a few µl up to 6.4 ml. Applications include differential gradient separations of proteins, DNA and RNA, lipoproteins, subcellular fractionation, membrane fractionation and sedimentation of viruses. Both fixed angle and swing bucket rotors are available.  The following rotors are available for use: TLA100, TLA110, MLA130 (all fixed angle), TLS55 (swing bucket).

Beckman Coulter Optima Max ultracentrifuge manual






Fluorescent Western Scanning / Imaging System
LiCor Odyssey Clx Infrared Imaging System

The Odyssey Infrared Imaging System allows multiplex Western Blotting and accurate protein detection and quantification using  secondary antibodies labeled with IRDye near-infrared (NIR) fluorescent dyes.

Li-Cor Odyssey Users Manual









Cell Counter
Life Technologies Automated Countess Cell Counter 

The Invitrogen Countess provides quick determination of viability and concentration of cells in suspension derived from tissue culture and/or isolated from tissue. It is a convenient alternative to performing time consuming cell counts with a hemocytometer. The Countess uses trypan blue exclusion to distinguish between dead and living cells. Users are charged for slides used.
Please contact Christoph Schorl to discuss biological safety prior to use.

Countess Automated Cell Counter manual








Scanning of Glass Slide-Based Arrays / Microarray Scanner
AXON Molecular Devices GenePix4000B Scanner

The Axon 4000B instrument scans individual slides in 2 colors (cy3 & cy5) using Genepix Software and simultaneously scans arrays on glass slides at two wavelengths using a dual laser scanning system, which dramatically reduces scan time.
The Core Facility also has the equipment required for hybridization of glass slide based arrays.

Download the Quick User's Guide for the GenePix4000B Scanner


Cell Imaging Multi-Mode Reader

Synergy H1 Hybrid Multi-Mode Reader

Synergy™ H1 is a configurable multi-mode microplate reader. Choose monochromator-based optics for flexibility, filter-based optics for sensitivity, or both…BioTek’s patented Hybrid Technology™ offers high-performance and applications versatility in a modular platform to expand as your laboratory’s needs change. Top and bottom fluorescence intensity, UV-visible absorbance and luminescence detection are available to meet many life science research requirements.

Download the Synergy H1 Manual


Cytation 5 Cell Imaging Multi-Mode Reader


Cell Imaging Multi-Mode Reader
BioTek Cytation™ 5 Cell Imaging Multi-Mode Reader

Cytation™ 5 combines automated digital microscopy and conventional microplate detection in a configurable, upgradable platform. The microscopy module offers up to 60x magnification in fluorescence, brightfield, high contrast brightfield, color brightfield and phase contrast for maximum applications reach.  The multi-mode detection modules include filter- and monochromator-based fluorescence  detection, luminescence and UV-Vis absorbance detection. Gen5™ software provides complete control over all imaging and data capture, plus powerful image and data analysis.

Download the Cytation 5 Operators Manual







Thermo Scientific NanoDrop One 

The NanoDrop One measure absorbance and is an alternative to a traditional cuvette spectrophotometer and allows the convenient measurement of small volumes (approximately 1.5 ul) to determine accurately RNA and DNA concentrations. The software displays the concentration in ng/ul together with some QC metrix.
The use of the Core Facility Nanodrop is restricted to nucleic acid measurement.

Download the NanoDrop One User Guide

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DNA Sequencer
Illumina NextSeq550 

This system is a high throughput benchtop sequencer that provides accurate fast sequencing data, and by employing flexible run configurations it can be easily adopted to a researcher’s needs depending on their required read length and sequencing depth.






DNA & RNA Analysis

 NanoString - nCounter Sprint Profiler

Molecular barcoding technology for RNA, DNA, and protein profiling applications. Digitally examine multiple pathways in a single tube in an extraction-free workflow. Included nSolver Analysis Software. Compatible with FFPE tissue. Highly multiplexed analysis of many functional pathways such as among others cancer, inflammation, cell death and custom designed expression analysis. Operated as fee for service.














Covaris S220 Focused-ultrasonicator

The S220 Focused-ultrasonicator is a versatile, high power system engineered for pre-analytical sample processing using Covaris’ patented Adaptive Focused Acoustics® (AFA®). Utilizing a spherical acoustic transducer, specifically designed acoustical cuvettes and advanced electronics, AFA delivers controlled energy precisely and accurately to sample volumes from 125 μl (microtube) to 200 ul (minitube). The Covaris S220 can be used for processing of RNA, Protein and DNA. The precisely controlled delivery of  energy is less damaging to DNA than that of tradional sonicators and it also allows to shear DNA to a user-defined and uniform size in a reproducible manner.