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)
