Technology Platforms
Bioinformatics Basel
Contact Information:
Dr. Aleksei Mironov
University of Basel
Email: aleksei.mironov@unibas.ch
Bioinformatics Zurich
Contact Information:
Dr. Puneet Sharma
Institute of Biochemistry
ETH Zurich
Otto-Stern-Weg 3
8093 Zürich
Switzerland
Email: puneet.sharma @bc.biol.ethz.ch
Cryo-EM
Contact Information:
Dr. Daniel Böhringer
Head of the ETHZ Cryo-EM Knowledge Hub
ETH Zürich
ETH-Hönggerberg, HPM C51
Otto-Stern-Weg 3
CH-8093 Zürich
Email: boehringer @mol.biol.ethz.ch
Phone: +41 44 633 39 85
Workflow:
Infrastructure:
- Robots for setting up crystallization experiments at 4°C and 20°C
- Formulatrix RockImagers 1000 at 4°C and 20°C allowing for remote inspection
- Formulator liquid handling/mixing robot
- Extensive commercial screen and stock solution libraries
- Manual crystallization setup at multiple temperatures
- Access to the Swiss Light Source
Services provided:
- Advice on sample preparation and inspection of crystals
- Setup of crystallization screens for provided samples
- Initial data collection at the Swiss Light Source
- Full crystal optimization and data collection with subsequent structure determination possible on a collaborative basis with the Jinek lab
Contact Information:
Beat Blattmann, Dr. Marcello Clerici, Dr.Carmela Garcia Doval and Caroline Simmen
Department of Biochemistry
University of Zurich
Winterthurerstrasse 190
CH-8057 Zurich
E-Mail: rna.xtal @bioc.uzh
mRNA Synthesis Platform
Contact Information:
PD Dr. Steve Pascolo
Head mRNA Platform
University of Zürich URPP Translational Cancer Research
Department of Dermatology
University Hospital Zürich
Rämistrasse 100
CH-8091 Zürich
Email: steve.pascolo @usz.ch
Website UZH URPP Tranlsational Cancer Research mRNA Platform
Next Generation Sequencing
Infrastructure:
- Illumina HiSeq3000
- Illumina MiSeq
Services provided:
- Library Generation
- Illumina sequencing
- Additional types of sequencing experiments (e.g. Pacific Biosciences, IonTorrent, etc.) subject to negotiation
Contact Information:
Dr. Pamela Nicholson
Institute of Genetics
Vetsuisse Faculty University of Bern
Bremgartenstrasse 109a
3001 Bern
E-Mail: pamela.nicholson @unibe.ch
Phone: +41 31 631 22 85
Website NGS Platform University of Bern
Nuclear Magnetic Resonance
Infrastructure:
- 5 spectrometers with cryoprobe: 500MHz, 2x600MHz, 700MHz, 900MHz
- 1 spectrometer without cryoprobe: 750MHz
- Measurable nuclei: 1H, 13C, 31P, 2H, 19F and 15N (direct detection not recommended)
Services provided:
- Expertise on production (e.g. isotope labeling) and preparation of NMR samples
- Expertise on acquisition and analysis of NMR data
Contact Information:
Dr. Antoine Cléry
ETH Zurich
Institute of Biochemistry
Biochemie II
HPP L15
Hönggerbergring 64
CH-8093 Zürich
E-Mail: antoine.clery @bc.biol.ethz.ch
Phone: +41 44 633 07 04
Proteomics
Infrastructure:
- 3 nanoLC-MS systems from Thermo (Fusion Lumos ETD, QExactive HF, QExactive)
Services provided:
- Standard sample preparation for LC-MS
- Protein identification
- PTM analysis
- Relative protein quantification (SILAC or label-free)
- Basic results evaluation of proteomics data
- Please enquire if you intend to do something that is not listed above
Contact Information:
PD Manfred Heller
KiKl D 841
PF 37, Inselspital
CH-3010 Bern
E-Mail: manfred.heller @unibe.ch
Phone: +41 31 632 84 04
Website PMSCF University of Bern
RNA Synthesis
Infrastructure:
- Two oligonucleotide synthesizers (phosphoramidite method)
- Semi-preparative and preparative HPLC for purification
- Quadrupole LC-coupled MS
Services provided:
- Synthesis of new phosphoramidite building blocks
- Preparation of modified oligonucleotides (Synthesis scale 50 nmol to 0.5 µmol)
- Preparation of selected modified oligonucleotides in 96-well format for screening
Contact Information:
Moravcík Štefan
Institute of Pharmaceutical Sciences
ETH Zürich
ETH-Hönggerberg, HCI H 436
Vladimir-Prelog-Weg 1-5/10
CH-8093 Zürich
E-Mail: stefan.moravcik @pharma.ethz.ch
RNA Mass Spectrometry Platform
More info coming soon.
Contact
Prof. Dr. Sebastian Leidel
DCBP, University of Bern
sebastian.leidel @unibe.ch
Structural Mass Spectrometry Platform
Services provided:
- Crosslinking of segmentally isotope-labeled RNA and tandem mass spectrometry (CLIR-MS/MS) method (G. Dorn, A. Leitner et al. (2017) Structural modeling of protein-RNA complexes using crosslinking of segmentally isotope-labeled RNA and MS/MS Nature Methods, 14(5):487-490 Pubmed)
- Cross-linking of protein-protein complexes mass spectrometry (XL-MS)
Contact information:
Dr. Alexander Leitner
Institute of Molecular Systems Biology
ETH Zurich
ETH Hönggerberg, HPT E53
Auguste-Piccard Hof 1
CH-8093 Zurich
Email: leitner @imsb.biol.ethz.ch
Phone: +41 44 633 2698