Services
Next Generation Sequencing (DNA/RNA)
- Library preparation (including quality control and validation)
- Genomic libraries with different insert lengths or PCR free
- RNA-Seq libraries
- Whole genome/Exome-Seq libraries
- DNA/RNA sequencing using Illumina MiSeq, HiSeq 3000 and NovaSeq platforms, as well as PacBio Sequel and Oxford Nanopore sequencing.
Proteomics
- Sample preparation for proteomics
- Enzymatic digest
- Fractionation of proteins (1D-PAGE) and peptides (isoelectric focussing (IEF))
- Quantitative shotgun proteomics assays
- Stable isotope labeling of aminoc acids in cell culture (SILAC)
- Label-free quantification
- LC-MS/MS measurements on high resolution platforms
- Thermo Fisher LTQ-Orbitrap XL
- Thermo Fisher LTQ-Orbitrap Elite
- Thermo Fisher Q-Exactive plus
- Quantitative targeted proteomics
- Targeted MS2 assays using Thermo Fisher q-Exactive plus
- Analysis of postranslational modifications (PTM)
- Routine analysis of phosporylated proteins via TiO2 enrichment of peptides
Metabolomics
- Metabolomics profiling of metabolites (untargeted Metabolomics)
- Waters Synapt G2
- Targeted metabolomics
- Absolute quantification using Biocrates chemistry
- Quantification using multiple reaction monitoring (MRM)
Data Management & IT
- Transfer, storage and user-authorized access to large OMICS data
- OpenBIS is used as a central data management facility. Data moving is done using Rsync routines as part of the OpenBIS data mover
- Web-portal-based data access to data and analysis pipelines
- Liferay is used as Portal solution
- gUSE is in use a production workflow system and as an interface the high-performance-computing (HPC) cluster
Bioinformatics Analysis
- Comprehensive analysis pipelines
- Web-portal-based data visualization
- Statistical assessment and support in biological interpretation
Structural Biology
- Small-Angle X-ray Scattering (SAXS), in collaboration with AG Schreiber (http://www.soft-matter.uni-tuebingen.de), Institute for Applied Physics, University of Tübingen.
Small-Angle X-ray Scattering is a powerful technique to study the structure and interactions of various systems with a typical size on the order of 1 nm to 100 nm. Particularly the properties of biological macromolecules such as DNA and proteins can be determined by SAXS.
The newly installed SAXS/WAXS system can be used for the following researches:
- Structure of materials (crystalline, amorphous, or porous)
- Solution structure of nanoparticles, colloids, surfactant, polymer or biomacromolecules (protein or DNA)
- Kinetics of phase transition, self-assembly, etc.
For more information about SAXS/WAXS please visit: http://www.soft-matter.uni-tuebingen.de/index.html?saxs.html.