Instrumentation
GEML operates specialized equipment for genome editing, sample preparation, quality control (QC), and sequencing. Some instruments are also made available for user-lab access through the external page b-fabric system.
Delivery of molecules to manipulate biological systems has always been a challenge, with low efficiency and/or high toxicity being the main hurdles. Nucleofection nicely complements chemical and viral methods, by showing high efficiency in commonly used cell types and providing access to primary cells and difficult to transfect cell lines.
The Lonza 4-D nucleofector core unit controls nucleofection parameters and the handling of various functional units that support different nucleofection formats.
- external page X unit: large cuvettes and 16-well strips, for up to 100ul and 20ul volumes, respectively.
- external page Y unit: 24-well culture dish format. Compatible with nucleofecting cells in adherence.
- external page LV unit: Large Volume setup for the nucleofection of up to 1xE9 cells.
Optimizing nucleofection conditions for your favorite cell type is not a trivial, but should also not been seen as an impossible, task. Please note that we do not offer user access to the 4D-nucleofector. Such experiments, typically part of larger collaborative projects, are conducted by our team.
This 4-D nucleofector add-on is ideal for higher-throughput experiments using the 96 well format, for example when transfering arrayed CRISPR libraries, during secondary screens.
Furthermore, implementing matrices of conditions facilitates assay establishment for difficult to transfect cells.
external page CovarisLE220-plus Focused-ultrasonicator
The focused-ultrasonicator allows the sonication and fragmentation of samples in an accurate and reprodicible manner. The LE220 supports 96well plates, allowing parallel processing of samples.
Provided material by FGCZ/GEML:
- Racks for tubes
Consumable provided by User:
- Tubes
Modules for Instrument reservation:
- Covaris instrument + User bench
- Optional: TapeStation 4200
external page C1000 Touch Thermal Cycler
Two thermal cyclers with 96-deep-well blocks to support NGS library preparation and ddPCR applications.
external page 10x Genomics Chromium microfluidics controller
Microfluidics platform that can generate barcoded partitions for downstream single-cell analysis applications.
external page QX200 Droplet Digital PCR System
The digital droplet PCR (ddPCR) quantifies nucleic acids using clonal amplification within discrete partitions inside each reaction.
Provided consumables by FGCZ/GEML:
- 96 well plates
- sealing foil
- ddPCR™ Droplet Reader Oil
Consumables provided by User:
- ddPCR reagents (Mastermix, primer/probes)
- Droplet Generation Oil for Probes
- Droplet Generator Cartridges and Gaskets
- USB Stick for data transfer
Modules for Instrument reservation - estimated time required:
- Droplet Generator + User bench (Plate Sealer included) – 2hrs
- D1000 Deep Well PCR cycler – 2hrs
- ddPCR Plate Reader – 4hrs
IMPORTANT NOTE!
Please read the external page droplet generator and external page droplet reader manuals carefully before planning and running your experiment.
external page Fragment Analyzer 5300
The fragment analyser utilizes capillary electrophoresis for the parallel separation and analysis of up to 48 samples.
Provided material by FGCZ/GEML:
- Buffers – charge is included in instrument usage
Consumable provided by User:
- Reagents
Modules for Instrument reservation:
- Fragment Analyzer + User bench
- Optional: TapeStation 4200
external page Tapestation 4200
Automated electrophoresis system that provides accurate and reproducible nucleic acid analysis.
Provided material by FGCZ/GEML:
- Electrophoresis Tape
- Sample buffers
- Standard Ladder
- all machine relevant consumables (tips and sample tubes)
Consumable provided by User:
- none
Modules for Instrument reservation:
- Tapestation + User bench
This alternative to a UV spectrometer, the Qubit fluorometer can accurately measure DNA, RNA, and protein concentration with high sensitivity.
Provided material by FGCZ/GEML:
- none
Consumable provided by User:
- sample buffers
- standards for instrument aligment
- compatible measuring tubes
Modules for Instrument reservation:
- Instrument
- Optional: Tapestation 4200
The Illumina MiSeq is a Benchtop Sequencer ideal for CRISPR library validation and Genome Editing outcomes analyses.
For more information regarding booking this instrument or submitting samples for sequencing, please follow the FGCZ links:
external page Instrument Booking
external page Revervation Page
external page Sample submission
external page Library submission
Introduced in 2020, the NextSeq2000 is a production scale sequencer that covers a wide range of applications, from off-target identification to pooled CRISPR screening with single-cell transcriptomic readout.
For more information regarding booking this instrument or submitting samples for sequencing, please follow the FGCZ links:
external page Instrument Booking
external page Revervation Page
external page Sample submission
external page Library submission