Genotyping Services
For genotyping using micro-arrays we offer an automated high-throughput service for Illumina Infinium Arrays, including the MethylationEPIC-Arrays. The readout is performed on two Illumina iScan-readers with autoloader. Customers new to Illumina Microarray-technology can find a good introduction here.
Prior to the start of a new project, we will schedule an in-depth consultation session with the customer. Contact us to schedule a meeting.
After agreeing on the best way forward you can book service via iLab.
Furthermore, we offer access to a qPCR instrument that can be used by trained internal customers. Contact us to schedule an introduction before first use.
For genotyping using micro-arrays we offer an automated high-throughput service for Illumina Infinium Arrays, including the MethylationEPIC-Arrays. The readout is performed on two Illumina iScan-readers with autoloader. Customers new to Illumina Microarray-technology can find a good introduction here.
Prior to the start of a new project, we will schedule an in-depth consultation session with the customer. Contact us to schedule a meeting.
After agreeing on the best way forward you can book service via iLab.
Furthermore, we offer access to a qPCR instrument that can be used by trained internal customers. Contact us to schedule an introduction before first use.
Our Genotyping Services
For array based genotyping customers can select from the Illumina Infinium array portfolio including the MethylationEPIC array for epigenetic analyses and the HumanCytoSNP-12 array for detecting structural genomic variants. A complete list of arrays can be found here.
Arrays are available in various formats, most commonly used are chips for 8, 12 and 24 samples. Customers need to provide an appropriate sample number to fill all places on the array. Please contact us for assistance with ordering Illumina genotyping array kits.
Bisulfite conversion required for the MethylationEPIC array is also available as a service. We use the Zymo EZ-96 DNA Methylation Kit.
DNA requirements
The Illumina Infinium assay is very robust provided high-molecular-weight DNA is used. As heavily degraded DNA may lead to high failure rates, we recommend spot-checking samples on a 0.8% agarose gel to assess for degradation.
Acceptable sample concentration must be in the range of 50-100 ng/µl. We recommend measuring the concentration with a fluorescent dye (Picogreen, Qubit) and not with UV (Nanodrop) as this may lead to an overestimation of the DNA amount due to RNA or other contaminants.
The sample volume required depends on the array type but must be at least 10 µl. DNA can be suspended in water, Tris-HCl buffer or TE.
Samples must be delivered in standard skirted 96-well microtiter plates with no empty wells.
Data output and delivery
For all procesed samples basic quality checks will be performed using Illumina’s GenomeStudio software. Afterwards, customers will receive a link to download the raw data from the iScan scanner (.idat files) together with a sample sheet to re-analyze data on their own.
The core also offer full-service data analysis service using Illumina’s GenomeStudio software to export genotypes. The genotype data set is available for download in several formats depending on the customer’s request, which can be discussed during the initial project meeting.
Our Thermo Fisher QuantStudio 7 Flex Real-Time PCR System is accessible to trained users for self service. Three different blocks are available: 96-well (0.2 ml), 384-well and TaqManArray card block. All blocks can easily be changed without any tools. A short introduction from the core team is mandatory for self service customers, please schedule a training prior to first use.
The instrument is located in building 34/room 102.
More details on the Quantstudio instrument can be found here.
- Tecan Fluent 480 liquid handling robot
- Illumina iScan with Autoloader
- Thermo Fisher QuantStudio 7 Flex Real-Time PCR System
